NAMIC Wiki - User contributions [en]

2016 Winter Project Week/Projects/AIMInteroperability

2015-12-29T18:28:08Z

Dclunie: /* Project Description */

__NOTOC__
<gallery>
Image:PW-MIT2016.png|link=2016_Winter_Project_Week#Projects|[[2016_Winter_Project_Week#Projects|Projects List]]
</gallery>

==Key Investigators==
* Hans Meine
*Steve Pieper
*Andriy Fedorov

==Project Description==
{| class="wikitable"
! style="text-align: left; width:27%" | Objective
! style="text-align: left; width:27%" | Approach and Plan
! style="text-align: left; width:27%" | Progress and Next Steps
|- style="vertical-align:top;"
|

* Evaluate [https://wiki.nci.nih.gov/display/AIM/Annotation+and+Image+Markup+-+AIM#AnnotationandImageMarkup-AIM-OpenSourceDevelopment AIM] as standard for image annotations, in particular w.r.t. interoperability (example: Slicer / MeVisLab)
|
*Try out AIM software
*Look at [http://www.na-mic.org/Wiki/index.php/Projects:QIN:3D_Slicer_Annotation_Image_Markup AIM support in 3D Slicer]
*Check [http://dicom.nema.org/medical/dicom/current/output/chtml/part16/chapter_A.html#sect_TID_1500 TID 1500 measurement template in DICOM SR] and work in progress on [ftp://d9-workgrps:Private15@medical.nema.org//MEDICAL/Private/Dicom/WORKGRPS/Committee/2015/2015-12-03/New-Work-Item-Proposals/Work-Item-Proposal%20-%20AIM2.docx harmonization of common AIM use cases through encoding as DICOM TID 1500 SR instances].
*Check [https://peerj.com/preprints/1541v1/ PeerJ pre-print]
*Estimate effort / plan further steps whether and how AIM could be supported in MeVisLab
|
*
|}

2016 Winter Project Week/Projects/AIMInteroperability

2015-12-29T18:27:35Z

Dclunie: /* Project Description */

__NOTOC__
<gallery>
Image:PW-MIT2016.png|link=2016_Winter_Project_Week#Projects|[[2016_Winter_Project_Week#Projects|Projects List]]
</gallery>

==Key Investigators==
* Hans Meine
*Steve Pieper
*Andriy Fedorov

==Project Description==
{| class="wikitable"
! style="text-align: left; width:27%" | Objective
! style="text-align: left; width:27%" | Approach and Plan
! style="text-align: left; width:27%" | Progress and Next Steps
|- style="vertical-align:top;"
|

* Evaluate [https://wiki.nci.nih.gov/display/AIM/Annotation+and+Image+Markup+-+AIM#AnnotationandImageMarkup-AIM-OpenSourceDevelopment AIM] as standard for image annotations, in particular w.r.t. interoperability (example: Slicer / MeVisLab)
|
*Try out AIM software
*Look at [http://www.na-mic.org/Wiki/index.php/Projects:QIN:3D_Slicer_Annotation_Image_Markup AIM support in 3D Slicer]
*Check [http://dicom.nema.org/medical/dicom/current/output/chtml/part16/chapter_A.html#sect_TID_1500 TID 1500 measurement template in DICOM SR] and proposed [ftp://d9-workgrps:Private15@medical.nema.org//MEDICAL/Private/Dicom/WORKGRPS/Committee/2015/2015-12-03/New-Work-Item-Proposals/Work-Item-Proposal%20-%20AIM2.docx harmonization of common AIM use cases through encoding as DICOM TID 1500 SR instances].
*Check [https://peerj.com/preprints/1541v1/ PeerJ pre-print]
*Estimate effort / plan further steps whether and how AIM could be supported in MeVisLab
|
*
|}

2016 Winter Project Week/Projects/Tractography format interoperability

2015-12-17T07:11:13Z

Dclunie: /* Background and References */

__NOTOC__
<gallery>
Image:PW-MIT2016.png|link=2016_Winter_Project_Week#Projects|[[2016_Winter_Project_Week#Projects|Projects List]]

</gallery>

==Key Investigators==
* Michael Onken, OFFIS
* Isaiah Norton, BWH
* Lauren O'Donnell, BWH

==Project Description==
{| class="wikitable"
|- style="vertical-align:top;"
! style="text-align: left; width:27%" | Objective

* Develop and test Slicer/DCMTK support for DICOM tractography (supplement 181).
* Develop and test Slicer support for DiPy's HDF5-based "dpy" tract format.

! style="text-align: left; width:27%" | Approach, Plan

*

! style="text-align: left; width:27%" | Progress

*

|}

==Background and References==

[ftp://medical.nema.org/medical/dicom/final/sup181_ft_TractographyResultsStorage.pdf DICOM Supplement 181]

Projects:QIN:3D Slicer Annotation Image Markup

2015-12-15T14:51:37Z

Dclunie: /* DICOM related */

=Scope of Work=

Annotation and Image Markup (AIM) project provides the foundation for enabling quantitative analysis of the results produced by the software tools by establishing the methodology to organize and describe the various representation of anatomical entities together with the semantic content and the image data. Unfortunately, the support of AIM in the key medical imaging research tools is currently lacking.

3D Slicer is a multi-platform free and open source software for visualization and medical image computing. NIH and NCI are major sponsors. 3D Slicer is currently central to the QIN grant activity at several of the QIN network sites and in the broader community. 3D Slicer currently includes support for rich set of annotations that can be created using 3D Slicer to support quantitative image analysis. However, these annotations are currently stored in a non-AIM format.

This activity will implement support of AIM in 3D Slicer, including storage of annotations produced by 3D Slicer in AIM format and importing AIM annotations into 3D Slicer. As a result, we will enable standardized storage and access to the results of quantitative analysis produced by the networked QIN grantees for improved analysis and biomarker validation based on the specific requirements and priorities determined by the QIN community. The driving set of use annotation/markup cases from QIN community is available here: [[Projects:QIN:3D_Slicer_Annotation_Image_Markup:Use cases]].

=Research Plan=

Our implementation plan will be driven by the use-cases provided by the QIN community.

First, we will collect a collection of detailed use cases that utilize annotations and/or AIM. These use cases will provide specific examples to drive and test our implementation.

Second, based on the defined use cases, we will develop AIM import capability in 3D Slicer so that the annotations created using other tools (e.g., ClearCanvas and EPAD) can be loaded and displayed in 3D Slicer.

Third, we will implement functionality to save the annotations created in 3D Slicer into AIM format.

The compatibility of the implementation will be tested using the QIN-defined use cases and the existing tools that support AIM functionality.

=Funding=
Supplement to U01CA151261 (NCI, PI Fiona Fennessy)

=Key Personnel=
* 0% Fiona Fennessy (PI)
* 0% Steve Pieper (NAC Collaboration consultant)
* 0% Ron Kikinis (NAC Collaboration consultant)
* 15% Andrey Fedorov (12/01/2011-07/31/2012)
* 50% Nicole Aucoin (12/01/2011-07/31/2012)
* 0% David Clunie (DICOM expertise)
* 0% Neha Agrawal (assistance in SNOMED Standard terminology mapping for Slicer GeneralAnatomyLabels)

=Progress=
* Jan - now: Implementation work, see details [[Projects:QIN:3D_Slicer_Annotation_Image_Markup:Design_and_Implementation]]
* Jan 9-13: NA-MIC Project week discussion with NA-MIC, SparKit, QIN community (represented by BWH and MGH) on AIM support architecture and implementation in 3D Slicer (see meeting notes and presentation slides here: [[2012_Winter_Project_Week_DICOM_RT_Breakout]])
* Jan 5: experiments with syngo.via, see [[Projects:QIN:3D Slicer Annotation Image Markup:DICOM-based annotations]]
* Dec 22: planning meeting (Nicole, Andrey): requirements, design, implementation strategy discussed [[Projects:QIN:3D Slicer Annotation Image Markup:Design and Implementation]]
* Dec 15: planning meeting (Steve, Nicole, Andrey): specific task formulated: add support for linking DICOM image UIDs to the Slicer image volumes
* Dec 8: Planning meeting with Steve Pieper.
** Discussed relation bw DICOM SR and AIM
** demo of annotation capabilities of ClearCanvas, reporting template
** discussed currently available QIN use cases (NCI TCGA, Stanford, MGH, Iowa).
** Tentative implementation plan: support DICOM SR import into Slicer (the limited subset of DICOM SR that covers the QIN use cases: measurement, polyline (?)). Add functionality to establish correspondence between slice as it is presented in Slicer and the DICOM image UID. Advantages of DICOM SR over AIM: this is a standard, libraries to interface are available (DCMTK), converter between DICOM SR and AIM objects is provided by Pat Mongkolwat team (AIMConverter).
** finalized personnel and effort for the project duration
* Dec 2: RSNA2011: meeting with Pat Mongolwat, Vlad Kleper, Larry Tarbox. Discussed C++ API for AIM v.3, currently available on Windows. ClearCanvas can save annotations in either DICOM SR or AIM. AIM can be converted into DICOM SR using a standalone tool distributed with AIM API Windows libraries. DICOM SR can be loaded from file. Discussed ideas for implementation:
# use C++ AIM API (this is Win only for now)
# write XML directly (may not be compatible with other AIM versions)
# convert MRML into AIM XML (there is no MRML schema right now)

* Nov 25: ClearCanvas workstation v 3.0.3 was installed and tested. Justin Kirby (NCI) provided first complete use case (breast MRI bi-dimensional tumor measurement). ClearCanvas can save annotations locally on disk, and can push to the AIM Data Service server, but cannot load them from file. See [[Projects:QIN:3D Slicer Annotation Image Markup:Existing AIM-compatible tools]]

* Nov 7: AIM API TCON with the QIN participants and BWH team.

* Dec 3 2015: DICOM Standards Committee (DSC) approves work item to develop mapping to convert AIM 4.0 annotations to equivalent DICOM TID 1500 SR documents (rather than literal transcoding of AIM UML classes) ... allows convergence with QIICR extention of Slicer to create/use TID 1500 SR objects

=Project-related links=
* Source code on github: https://github.com/fedorov/Reporting
* [[Projects:QIN:3D Slicer Annotation Image Markup:Design and Implementation | Design and implementation]]
* [[Projects:QIN:3D Slicer Annotation Image Markup:DICOM-based annotations | DICOM SR related materials]]
* [[Projects:QIN:3D Slicer Annotation Image Markup:Existing AIM-compatible tools | AIM related materials]]
* [[Projects:QIN:3D_Slicer_Annotation_Image_Markup:Use cases | Motivating QIN use-cases]]
* [[Projects:QIN:3D_Slicer_Annotation_Image_Markup:Standard Terminology | Standard Terminology]]

=Resources=
==Web==
* NCI QIN Wiki https://wiki.nci.nih.gov/display/CIP/QIN
* 3D Slicer Annotations [[Projects:ARRA:miAnnotation]]
* http://qibawiki.rsna.org/index.php?title=Segmentation_and_Markup_Formats
===DICOM related===
* [https://peerj.com/preprints/1541v1/ DICOM for quantitative imaging biomarker development: A standards based approach to sharing of clinical data and structured PET/CT analysis results in head and neck cancer research]
* [ftp://d9-workgrps:Private15@medical.nema.org//MEDICAL/Private/Dicom/WORKGRPS/Committee/2015/2015-12-03/New-Work-Item-Proposals/Work-Item-Proposal%20-%20AIM2.docx Proposal for New Work Item from WG-08 Transcoding of NCI Annotation and Image Markup (AIM) and DICOM-SR Measurement Templates]
* DICOM Structured Reporting by David Clunie [http://books.google.com/books?id=EVjOolUJNGUC&lpg=PP1&pg=PA8#v=onepage&q&f=false at Google Books]
* Frontiers in PACS: DICOM Structured Reporting (slides by D.Clunie) [http://www.dclunie.com/papers/sr20010725.pdf URL]
* DICOM Supplement 23: Structured Reporting Storage SOP Class - Final text [ftp://medical.nema.org/medical/dicom/final/sup23_ft.pdf PDF - DO NOT USE - SEE CURRENT STANDARD])
* DICOM Supplement 111: Segmentation Storage SOP Class [ftp://medical.nema.org/medical/dicom/final/sup111_ft.pdf URL - DO NOT USE - SEE CURRENT STANDARD]
* [http://medical.nema.org/standard.html The DICOM Standard all docs]
* [http://www.dclunie.com/dicom-status/status.html Index of DICOM Standard, Supplements and Corrections]

* DICOM PS3.3 Information Object Definitions - Structured Report Document Information Object Definitions [http://dicom.nema.org/medical/dicom/current/output/chtml/part16/chapter_A.html HTML] [http://dicom.nema.org/medical/dicom/current/output/pdf/part16.pdf PDF]
* DICOM PS3.16 Content Mapping Resource - Structured Reporting Templates [http://dicom.nema.org/medical/dicom/current/output/chtml/part03/sect_A.35.html HTML] [http://dicom.nema.org/medical/dicom/current/output/pdf/part03.pdf PDF]
* DICOM PS3.17 Explanatory Information [http://dicom.nema.org/medical/dicom/current/output/chtml/part17/PS3.17.html HTML] [http://dicom.nema.org/medical/dicom/current/output/pdf/part17.pdf PDF]
* [http://www.radreport.org/ RSNA Radiology Reporting initiative]
* [http://code.google.com/p/dicom-sr-qi/ dicom-sr-qi project] (Google Code)
* [http://dabsoft.ch/dicom/index.html DICOM standard in HTML form]
* [https://uts.nlm.nih.gov/home.html UMLS terminology services] (SNOMED CT browser)
* [http://www.slicer.org/slicerWiki/index.php/Slicer3:2010_GenericAnatomyColors Slicer3 GenericAnatomyColors LUT]
* [http://dicomlookup.com/default.htm DICOM Lookup] (HTML DICOM, search, tables)

===XML related===
* XSD http://searchsoa.techtarget.com/definition/XSD
* CodeSynthesis wiki http://wiki.codesynthesis.com/Main_Page (commercial, free license for code under 10k lines)
* [http://developer.qt.nokia.com/doc/qt-4.7/qtxml.html#id-4d134195-e0b7-4e2e-a493-83c973316fc3 Qt 4.7 QtXml module]
* [http://developer.qt.nokia.com/doc/qt-4.7/qtxmlpatterns.html#id-c56cbcf7-1976-482a-9ab8-9eeceb1043ee Qt 4.7 QXmlPatterns module]
* [http://developer.qt.nokia.com/forums/viewthread/2199 XSD: XML Data binding for Qt (discussion thread)]
* [http://wiki.python.org/moin/PythonXml Python and XML: summary of existing solutions and tools]
* Komodo Edit: free cross-platform XML/XSD editor http://www.activestate.com/komodo-edit

===AIM related===
* caBIG AIM portal https://cabig.nci.nih.gov/tools/AIM
* NCI Wiki AIM Documentation https://wiki.nci.nih.gov/display/AIM/AIM+Documentation
* [https://cabig-kc.nci.nih.gov/Imaging/forums/viewforum.php?f=7&sid=ef6506e5c05c6acf839a7925753b05f3 caBIG Imaging Knowledge Center discussion boards]
* https://cdebrowser.nci.nih.gov/CDEBrowser/ -- definitions of attributes used in AIM (see caBIG->Classifications->AIM 3.0 in the left-side tree hierarchy)
* https://wiki.nci.nih.gov/display/AIM/AIM+on+ClearCanvas+Workstation+3.0.4+and+3.0.4.x+Release+Notes

==Bibliography==
* Rubin, D. L., Mongkolwat, P., Kleper, V., Supekar, K., & Channin, D. S. (2009). Annotation and Image Markup: Accessing and Interoperating with the Semantic Content in Medical Imaging. IEEE Intelligent Systems, 24(1), 57-65. doi:10.1109/MIS.2009.3 [http://ieeexplore.ieee.org/lpdocs/epic03/wrapper.htm?arnumber=4763656 IEEE Explore]
* Channin, D. S., Mongkolwat, P., Kleper, V., Sepukar, K., & Rubin, D. L. (2010). The caBIG annotation and image Markup project. Journal of digital imaging : the official journal of the Society for Computer Applications in Radiology, 23(2), 217-25. doi:10.1007/s10278-009-9193-9 [http://www.pubmedcentral.nih.gov/articlerender.fcgi?artid=2837161 Pubmed]
* Clunie, D. A. (2007). DICOM Structured Reporting and Cancer Clinical Trials Results. Cancer Informatics, 4, 33-56. Libertas Academica. Retrieved from http://www.la-press.com/dicom-structured-reporting-and-cancer-clinical-trials-results-article-a240
* Hussein, R., Engelmann, U., Schroeter, A., & Meinzer, H.-P. (2004). DICOM structured reporting: Part 1. Overview and characteristics. Radiographics : a review publication of the Radiological Society of North America, Inc, 24(3), 891-6. doi:10.1148/rg.243035710 http://www.ncbi.nlm.nih.gov/pubmed/15143238
* Hussein, R., Engelmann, U., Schroeter, A., & Meinzer, H.-P. (2004). DICOM structured reporting: Part 2. Problems and challenges in implementation for PACS workstations. Radiographics : a review publication of the Radiological Society of North America, Inc, 24(3), 897-909. doi:10.1148/rg.243035722 http://www.ncbi.nlm.nih.gov/pubmed/15143239

Projects:QIN:3D Slicer Annotation Image Markup

2015-12-15T14:44:27Z

Dclunie: /* DICOM related */

=Scope of Work=

Annotation and Image Markup (AIM) project provides the foundation for enabling quantitative analysis of the results produced by the software tools by establishing the methodology to organize and describe the various representation of anatomical entities together with the semantic content and the image data. Unfortunately, the support of AIM in the key medical imaging research tools is currently lacking.

3D Slicer is a multi-platform free and open source software for visualization and medical image computing. NIH and NCI are major sponsors. 3D Slicer is currently central to the QIN grant activity at several of the QIN network sites and in the broader community. 3D Slicer currently includes support for rich set of annotations that can be created using 3D Slicer to support quantitative image analysis. However, these annotations are currently stored in a non-AIM format.

This activity will implement support of AIM in 3D Slicer, including storage of annotations produced by 3D Slicer in AIM format and importing AIM annotations into 3D Slicer. As a result, we will enable standardized storage and access to the results of quantitative analysis produced by the networked QIN grantees for improved analysis and biomarker validation based on the specific requirements and priorities determined by the QIN community. The driving set of use annotation/markup cases from QIN community is available here: [[Projects:QIN:3D_Slicer_Annotation_Image_Markup:Use cases]].

=Research Plan=

Our implementation plan will be driven by the use-cases provided by the QIN community.

First, we will collect a collection of detailed use cases that utilize annotations and/or AIM. These use cases will provide specific examples to drive and test our implementation.

Second, based on the defined use cases, we will develop AIM import capability in 3D Slicer so that the annotations created using other tools (e.g., ClearCanvas and EPAD) can be loaded and displayed in 3D Slicer.

Third, we will implement functionality to save the annotations created in 3D Slicer into AIM format.

The compatibility of the implementation will be tested using the QIN-defined use cases and the existing tools that support AIM functionality.

=Funding=
Supplement to U01CA151261 (NCI, PI Fiona Fennessy)

=Key Personnel=
* 0% Fiona Fennessy (PI)
* 0% Steve Pieper (NAC Collaboration consultant)
* 0% Ron Kikinis (NAC Collaboration consultant)
* 15% Andrey Fedorov (12/01/2011-07/31/2012)
* 50% Nicole Aucoin (12/01/2011-07/31/2012)
* 0% David Clunie (DICOM expertise)
* 0% Neha Agrawal (assistance in SNOMED Standard terminology mapping for Slicer GeneralAnatomyLabels)

=Progress=
* Jan - now: Implementation work, see details [[Projects:QIN:3D_Slicer_Annotation_Image_Markup:Design_and_Implementation]]
* Jan 9-13: NA-MIC Project week discussion with NA-MIC, SparKit, QIN community (represented by BWH and MGH) on AIM support architecture and implementation in 3D Slicer (see meeting notes and presentation slides here: [[2012_Winter_Project_Week_DICOM_RT_Breakout]])
* Jan 5: experiments with syngo.via, see [[Projects:QIN:3D Slicer Annotation Image Markup:DICOM-based annotations]]
* Dec 22: planning meeting (Nicole, Andrey): requirements, design, implementation strategy discussed [[Projects:QIN:3D Slicer Annotation Image Markup:Design and Implementation]]
* Dec 15: planning meeting (Steve, Nicole, Andrey): specific task formulated: add support for linking DICOM image UIDs to the Slicer image volumes
* Dec 8: Planning meeting with Steve Pieper.
** Discussed relation bw DICOM SR and AIM
** demo of annotation capabilities of ClearCanvas, reporting template
** discussed currently available QIN use cases (NCI TCGA, Stanford, MGH, Iowa).
** Tentative implementation plan: support DICOM SR import into Slicer (the limited subset of DICOM SR that covers the QIN use cases: measurement, polyline (?)). Add functionality to establish correspondence between slice as it is presented in Slicer and the DICOM image UID. Advantages of DICOM SR over AIM: this is a standard, libraries to interface are available (DCMTK), converter between DICOM SR and AIM objects is provided by Pat Mongkolwat team (AIMConverter).
** finalized personnel and effort for the project duration
* Dec 2: RSNA2011: meeting with Pat Mongolwat, Vlad Kleper, Larry Tarbox. Discussed C++ API for AIM v.3, currently available on Windows. ClearCanvas can save annotations in either DICOM SR or AIM. AIM can be converted into DICOM SR using a standalone tool distributed with AIM API Windows libraries. DICOM SR can be loaded from file. Discussed ideas for implementation:
# use C++ AIM API (this is Win only for now)
# write XML directly (may not be compatible with other AIM versions)
# convert MRML into AIM XML (there is no MRML schema right now)

* Nov 25: ClearCanvas workstation v 3.0.3 was installed and tested. Justin Kirby (NCI) provided first complete use case (breast MRI bi-dimensional tumor measurement). ClearCanvas can save annotations locally on disk, and can push to the AIM Data Service server, but cannot load them from file. See [[Projects:QIN:3D Slicer Annotation Image Markup:Existing AIM-compatible tools]]

* Nov 7: AIM API TCON with the QIN participants and BWH team.

* Dec 3 2015: DICOM Standards Committee (DSC) approves work item to develop mapping to convert AIM 4.0 annotations to equivalent DICOM TID 1500 SR documents (rather than literal transcoding of AIM UML classes) ... allows convergence with QIICR extention of Slicer to create/use TID 1500 SR objects

=Project-related links=
* Source code on github: https://github.com/fedorov/Reporting
* [[Projects:QIN:3D Slicer Annotation Image Markup:Design and Implementation | Design and implementation]]
* [[Projects:QIN:3D Slicer Annotation Image Markup:DICOM-based annotations | DICOM SR related materials]]
* [[Projects:QIN:3D Slicer Annotation Image Markup:Existing AIM-compatible tools | AIM related materials]]
* [[Projects:QIN:3D_Slicer_Annotation_Image_Markup:Use cases | Motivating QIN use-cases]]
* [[Projects:QIN:3D_Slicer_Annotation_Image_Markup:Standard Terminology | Standard Terminology]]

=Resources=
==Web==
* NCI QIN Wiki https://wiki.nci.nih.gov/display/CIP/QIN
* 3D Slicer Annotations [[Projects:ARRA:miAnnotation]]
* http://qibawiki.rsna.org/index.php?title=Segmentation_and_Markup_Formats
===DICOM related===
* [ftp://d9-workgrps:Private15@medical.nema.org//MEDICAL/Private/Dicom/WORKGRPS/Committee/2015/2015-12-03/New-Work-Item-Proposals/Work-Item-Proposal%20-%20AIM2.docx Proposal for New Work Item from WG-08 Transcoding of NCI Annotation and Image Markup (AIM) and DICOM-SR Measurement Templates]
* DICOM Structured Reporting by David Clunie [http://books.google.com/books?id=EVjOolUJNGUC&lpg=PP1&pg=PA8#v=onepage&q&f=false at Google Books]
* Frontiers in PACS: DICOM Structured Reporting (slides by D.Clunie) [http://www.dclunie.com/papers/sr20010725.pdf URL]
* DICOM Supplement 23: Structured Reporting Storage SOP Class - Final text [ftp://medical.nema.org/medical/dicom/final/sup23_ft.pdf PDF - DO NOT USE - SEE CURRENT STANDARD])
* DICOM Supplement 111: Segmentation Storage SOP Class [ftp://medical.nema.org/medical/dicom/final/sup111_ft.pdf URL - DO NOT USE - SEE CURRENT STANDARD]
* [http://medical.nema.org/standard.html The DICOM Standard all docs]
* [http://www.dclunie.com/dicom-status/status.html Index of DICOM Standard, Supplements and Corrections]

* DICOM PS3.3 Information Object Definitions - Structured Report Document Information Object Definitions [http://dicom.nema.org/medical/dicom/current/output/chtml/part16/chapter_A.html HTML] [http://dicom.nema.org/medical/dicom/current/output/pdf/part16.pdf PDF]
* DICOM PS3.16 Content Mapping Resource - Structured Reporting Templates [http://dicom.nema.org/medical/dicom/current/output/chtml/part03/sect_A.35.html HTML] [http://dicom.nema.org/medical/dicom/current/output/pdf/part03.pdf PDF]
* DICOM PS3.17 Explanatory Information [http://dicom.nema.org/medical/dicom/current/output/chtml/part17/PS3.17.html HTML] [http://dicom.nema.org/medical/dicom/current/output/pdf/part17.pdf PDF]
* [http://www.radreport.org/ RSNA Radiology Reporting initiative]
* [http://code.google.com/p/dicom-sr-qi/ dicom-sr-qi project] (Google Code)
* [http://dabsoft.ch/dicom/index.html DICOM standard in HTML form]
* [https://uts.nlm.nih.gov/home.html UMLS terminology services] (SNOMED CT browser)
* [http://www.slicer.org/slicerWiki/index.php/Slicer3:2010_GenericAnatomyColors Slicer3 GenericAnatomyColors LUT]
* [http://dicomlookup.com/default.htm DICOM Lookup] (HTML DICOM, search, tables)

===XML related===
* XSD http://searchsoa.techtarget.com/definition/XSD
* CodeSynthesis wiki http://wiki.codesynthesis.com/Main_Page (commercial, free license for code under 10k lines)
* [http://developer.qt.nokia.com/doc/qt-4.7/qtxml.html#id-4d134195-e0b7-4e2e-a493-83c973316fc3 Qt 4.7 QtXml module]
* [http://developer.qt.nokia.com/doc/qt-4.7/qtxmlpatterns.html#id-c56cbcf7-1976-482a-9ab8-9eeceb1043ee Qt 4.7 QXmlPatterns module]
* [http://developer.qt.nokia.com/forums/viewthread/2199 XSD: XML Data binding for Qt (discussion thread)]
* [http://wiki.python.org/moin/PythonXml Python and XML: summary of existing solutions and tools]
* Komodo Edit: free cross-platform XML/XSD editor http://www.activestate.com/komodo-edit

===AIM related===
* caBIG AIM portal https://cabig.nci.nih.gov/tools/AIM
* NCI Wiki AIM Documentation https://wiki.nci.nih.gov/display/AIM/AIM+Documentation
* [https://cabig-kc.nci.nih.gov/Imaging/forums/viewforum.php?f=7&sid=ef6506e5c05c6acf839a7925753b05f3 caBIG Imaging Knowledge Center discussion boards]
* https://cdebrowser.nci.nih.gov/CDEBrowser/ -- definitions of attributes used in AIM (see caBIG->Classifications->AIM 3.0 in the left-side tree hierarchy)
* https://wiki.nci.nih.gov/display/AIM/AIM+on+ClearCanvas+Workstation+3.0.4+and+3.0.4.x+Release+Notes

==Bibliography==
* Rubin, D. L., Mongkolwat, P., Kleper, V., Supekar, K., & Channin, D. S. (2009). Annotation and Image Markup: Accessing and Interoperating with the Semantic Content in Medical Imaging. IEEE Intelligent Systems, 24(1), 57-65. doi:10.1109/MIS.2009.3 [http://ieeexplore.ieee.org/lpdocs/epic03/wrapper.htm?arnumber=4763656 IEEE Explore]
* Channin, D. S., Mongkolwat, P., Kleper, V., Sepukar, K., & Rubin, D. L. (2010). The caBIG annotation and image Markup project. Journal of digital imaging : the official journal of the Society for Computer Applications in Radiology, 23(2), 217-25. doi:10.1007/s10278-009-9193-9 [http://www.pubmedcentral.nih.gov/articlerender.fcgi?artid=2837161 Pubmed]
* Clunie, D. A. (2007). DICOM Structured Reporting and Cancer Clinical Trials Results. Cancer Informatics, 4, 33-56. Libertas Academica. Retrieved from http://www.la-press.com/dicom-structured-reporting-and-cancer-clinical-trials-results-article-a240
* Hussein, R., Engelmann, U., Schroeter, A., & Meinzer, H.-P. (2004). DICOM structured reporting: Part 1. Overview and characteristics. Radiographics : a review publication of the Radiological Society of North America, Inc, 24(3), 891-6. doi:10.1148/rg.243035710 http://www.ncbi.nlm.nih.gov/pubmed/15143238
* Hussein, R., Engelmann, U., Schroeter, A., & Meinzer, H.-P. (2004). DICOM structured reporting: Part 2. Problems and challenges in implementation for PACS workstations. Radiographics : a review publication of the Radiological Society of North America, Inc, 24(3), 897-909. doi:10.1148/rg.243035722 http://www.ncbi.nlm.nih.gov/pubmed/15143239

Projects:QIN:3D Slicer Annotation Image Markup

2015-12-15T14:08:32Z

Dclunie: /* Progress */

=Scope of Work=

Annotation and Image Markup (AIM) project provides the foundation for enabling quantitative analysis of the results produced by the software tools by establishing the methodology to organize and describe the various representation of anatomical entities together with the semantic content and the image data. Unfortunately, the support of AIM in the key medical imaging research tools is currently lacking.

3D Slicer is a multi-platform free and open source software for visualization and medical image computing. NIH and NCI are major sponsors. 3D Slicer is currently central to the QIN grant activity at several of the QIN network sites and in the broader community. 3D Slicer currently includes support for rich set of annotations that can be created using 3D Slicer to support quantitative image analysis. However, these annotations are currently stored in a non-AIM format.

This activity will implement support of AIM in 3D Slicer, including storage of annotations produced by 3D Slicer in AIM format and importing AIM annotations into 3D Slicer. As a result, we will enable standardized storage and access to the results of quantitative analysis produced by the networked QIN grantees for improved analysis and biomarker validation based on the specific requirements and priorities determined by the QIN community. The driving set of use annotation/markup cases from QIN community is available here: [[Projects:QIN:3D_Slicer_Annotation_Image_Markup:Use cases]].

=Research Plan=

Our implementation plan will be driven by the use-cases provided by the QIN community.

First, we will collect a collection of detailed use cases that utilize annotations and/or AIM. These use cases will provide specific examples to drive and test our implementation.

Second, based on the defined use cases, we will develop AIM import capability in 3D Slicer so that the annotations created using other tools (e.g., ClearCanvas and EPAD) can be loaded and displayed in 3D Slicer.

Third, we will implement functionality to save the annotations created in 3D Slicer into AIM format.

The compatibility of the implementation will be tested using the QIN-defined use cases and the existing tools that support AIM functionality.

=Funding=
Supplement to U01CA151261 (NCI, PI Fiona Fennessy)

=Key Personnel=
* 0% Fiona Fennessy (PI)
* 0% Steve Pieper (NAC Collaboration consultant)
* 0% Ron Kikinis (NAC Collaboration consultant)
* 15% Andrey Fedorov (12/01/2011-07/31/2012)
* 50% Nicole Aucoin (12/01/2011-07/31/2012)
* 0% David Clunie (DICOM expertise)
* 0% Neha Agrawal (assistance in SNOMED Standard terminology mapping for Slicer GeneralAnatomyLabels)

=Progress=
* Jan - now: Implementation work, see details [[Projects:QIN:3D_Slicer_Annotation_Image_Markup:Design_and_Implementation]]
* Jan 9-13: NA-MIC Project week discussion with NA-MIC, SparKit, QIN community (represented by BWH and MGH) on AIM support architecture and implementation in 3D Slicer (see meeting notes and presentation slides here: [[2012_Winter_Project_Week_DICOM_RT_Breakout]])
* Jan 5: experiments with syngo.via, see [[Projects:QIN:3D Slicer Annotation Image Markup:DICOM-based annotations]]
* Dec 22: planning meeting (Nicole, Andrey): requirements, design, implementation strategy discussed [[Projects:QIN:3D Slicer Annotation Image Markup:Design and Implementation]]
* Dec 15: planning meeting (Steve, Nicole, Andrey): specific task formulated: add support for linking DICOM image UIDs to the Slicer image volumes
* Dec 8: Planning meeting with Steve Pieper.
** Discussed relation bw DICOM SR and AIM
** demo of annotation capabilities of ClearCanvas, reporting template
** discussed currently available QIN use cases (NCI TCGA, Stanford, MGH, Iowa).
** Tentative implementation plan: support DICOM SR import into Slicer (the limited subset of DICOM SR that covers the QIN use cases: measurement, polyline (?)). Add functionality to establish correspondence between slice as it is presented in Slicer and the DICOM image UID. Advantages of DICOM SR over AIM: this is a standard, libraries to interface are available (DCMTK), converter between DICOM SR and AIM objects is provided by Pat Mongkolwat team (AIMConverter).
** finalized personnel and effort for the project duration
* Dec 2: RSNA2011: meeting with Pat Mongolwat, Vlad Kleper, Larry Tarbox. Discussed C++ API for AIM v.3, currently available on Windows. ClearCanvas can save annotations in either DICOM SR or AIM. AIM can be converted into DICOM SR using a standalone tool distributed with AIM API Windows libraries. DICOM SR can be loaded from file. Discussed ideas for implementation:
# use C++ AIM API (this is Win only for now)
# write XML directly (may not be compatible with other AIM versions)
# convert MRML into AIM XML (there is no MRML schema right now)

* Nov 25: ClearCanvas workstation v 3.0.3 was installed and tested. Justin Kirby (NCI) provided first complete use case (breast MRI bi-dimensional tumor measurement). ClearCanvas can save annotations locally on disk, and can push to the AIM Data Service server, but cannot load them from file. See [[Projects:QIN:3D Slicer Annotation Image Markup:Existing AIM-compatible tools]]

* Nov 7: AIM API TCON with the QIN participants and BWH team.

* Dec 3 2015: DICOM Standards Committee (DSC) approves work item to develop mapping to convert AIM 4.0 annotations to equivalent DICOM TID 1500 SR documents (rather than literal transcoding of AIM UML classes) ... allows convergence with QIICR extention of Slicer to create/use TID 1500 SR objects

=Project-related links=
* Source code on github: https://github.com/fedorov/Reporting
* [[Projects:QIN:3D Slicer Annotation Image Markup:Design and Implementation | Design and implementation]]
* [[Projects:QIN:3D Slicer Annotation Image Markup:DICOM-based annotations | DICOM SR related materials]]
* [[Projects:QIN:3D Slicer Annotation Image Markup:Existing AIM-compatible tools | AIM related materials]]
* [[Projects:QIN:3D_Slicer_Annotation_Image_Markup:Use cases | Motivating QIN use-cases]]
* [[Projects:QIN:3D_Slicer_Annotation_Image_Markup:Standard Terminology | Standard Terminology]]

=Resources=
==Web==
* NCI QIN Wiki https://wiki.nci.nih.gov/display/CIP/QIN
* 3D Slicer Annotations [[Projects:ARRA:miAnnotation]]
* http://qibawiki.rsna.org/index.php?title=Segmentation_and_Markup_Formats
===DICOM related===
* DICOM Structured Reporting by David Clunie [http://books.google.com/books?id=EVjOolUJNGUC&lpg=PP1&pg=PA8#v=onepage&q&f=false at Google Books]
* Frontiers in PACS: DICOM Structured Reporting (slides by D.Clunie) [http://www.dclunie.com/papers/sr20010725.pdf URL]
* DICOM Supplement 23: Structured Reporting Storage SOP Class: PS 3.3.-2011, p.230 http://medical.nema.org/Dicom/2011/11_03pu.pdf (initial ballot [http://medical.nema.org/Dicom/supps/sup23_lb.pdf URL])
* DICOM Supplement 111: Segmentation Storage SOP Class [ftp://medical.nema.org/medical/dicom/final/sup111_ft.pdf URL]
* [http://medical.nema.org/standard.html The DICOM Standard all docs]
* [http://medical.nema.org/Dicom/2011/11_17pu.pdf DICOM part 17: Explanatory information]
* [http://www.radreport.org/ RSNA Radiology Reporting initiative]
* [http://code.google.com/p/dicom-sr-qi/ dicom-sr-qi project] (Google Code)
* [http://dabsoft.ch/dicom/index.html DICOM standard in HTML form]
* [https://uts.nlm.nih.gov/home.html UMLS terminology services] (SNOMED CT browser)
* [http://www.slicer.org/slicerWiki/index.php/Slicer3:2010_GenericAnatomyColors Slicer3 GenericAnatomyColors LUT]
* [http://dicomlookup.com/default.htm DICOM Lookup] (HTML DICOM, search, tables)

===XML related===
* XSD http://searchsoa.techtarget.com/definition/XSD
* CodeSynthesis wiki http://wiki.codesynthesis.com/Main_Page (commercial, free license for code under 10k lines)
* [http://developer.qt.nokia.com/doc/qt-4.7/qtxml.html#id-4d134195-e0b7-4e2e-a493-83c973316fc3 Qt 4.7 QtXml module]
* [http://developer.qt.nokia.com/doc/qt-4.7/qtxmlpatterns.html#id-c56cbcf7-1976-482a-9ab8-9eeceb1043ee Qt 4.7 QXmlPatterns module]
* [http://developer.qt.nokia.com/forums/viewthread/2199 XSD: XML Data binding for Qt (discussion thread)]
* [http://wiki.python.org/moin/PythonXml Python and XML: summary of existing solutions and tools]
* Komodo Edit: free cross-platform XML/XSD editor http://www.activestate.com/komodo-edit

===AIM related===
* caBIG AIM portal https://cabig.nci.nih.gov/tools/AIM
* NCI Wiki AIM Documentation https://wiki.nci.nih.gov/display/AIM/AIM+Documentation
* [https://cabig-kc.nci.nih.gov/Imaging/forums/viewforum.php?f=7&sid=ef6506e5c05c6acf839a7925753b05f3 caBIG Imaging Knowledge Center discussion boards]
* https://cdebrowser.nci.nih.gov/CDEBrowser/ -- definitions of attributes used in AIM (see caBIG->Classifications->AIM 3.0 in the left-side tree hierarchy)
* https://wiki.nci.nih.gov/display/AIM/AIM+on+ClearCanvas+Workstation+3.0.4+and+3.0.4.x+Release+Notes

==Bibliography==
* Rubin, D. L., Mongkolwat, P., Kleper, V., Supekar, K., & Channin, D. S. (2009). Annotation and Image Markup: Accessing and Interoperating with the Semantic Content in Medical Imaging. IEEE Intelligent Systems, 24(1), 57-65. doi:10.1109/MIS.2009.3 [http://ieeexplore.ieee.org/lpdocs/epic03/wrapper.htm?arnumber=4763656 IEEE Explore]
* Channin, D. S., Mongkolwat, P., Kleper, V., Sepukar, K., & Rubin, D. L. (2010). The caBIG annotation and image Markup project. Journal of digital imaging : the official journal of the Society for Computer Applications in Radiology, 23(2), 217-25. doi:10.1007/s10278-009-9193-9 [http://www.pubmedcentral.nih.gov/articlerender.fcgi?artid=2837161 Pubmed]
* Clunie, D. A. (2007). DICOM Structured Reporting and Cancer Clinical Trials Results. Cancer Informatics, 4, 33-56. Libertas Academica. Retrieved from http://www.la-press.com/dicom-structured-reporting-and-cancer-clinical-trials-results-article-a240
* Hussein, R., Engelmann, U., Schroeter, A., & Meinzer, H.-P. (2004). DICOM structured reporting: Part 1. Overview and characteristics. Radiographics : a review publication of the Radiological Society of North America, Inc, 24(3), 891-6. doi:10.1148/rg.243035710 http://www.ncbi.nlm.nih.gov/pubmed/15143238
* Hussein, R., Engelmann, U., Schroeter, A., & Meinzer, H.-P. (2004). DICOM structured reporting: Part 2. Problems and challenges in implementation for PACS workstations. Radiographics : a review publication of the Radiological Society of North America, Inc, 24(3), 897-909. doi:10.1148/rg.243035722 http://www.ncbi.nlm.nih.gov/pubmed/15143239

Iowa2014

2014-11-18T18:39:21Z

Dclunie: /* Agenda */

==Logistics==
{| border="00" cellpadding="8" cellspacing="0"
|-
| rowspan="2" align="left"|
*Date: November 18-19, 2014
*Location: Hardin Library for Health Sciences, Info Commons West, U. of Iowa, Iowa City, Iowa

[[Media:2014-Slicer-Iowa.pdf|Event flyer]]

This event is co-sponsored by [http://biomed-imaging.uiowa.edu/ the Iowa Institute for Biomedical Imaging], NIH [http://nac.spl.harvard.edu/ Neuroimage Analysis Center (NAC)] and [http://qiicr.og Quantitative Image Informatics for Cancer Research (QIICR)] projects.

The registration fee is $50. Space is limited, please register online at https://www.regonline.com/builder/site/Default.aspx?EventID=1632476

'''The registration deadline is November 11, 2014!'''
| style="background: #ebeced" colspan="2" align="center"|
|-
| style="background: #ebeced"| [[Image:2014-Slicer-Iowa.png|350px]]
|}

==Local Hosts==
* Milan Sonka, Ph.D., University of Iowa, IA
* Reinhard Beichel, Ph.D., University of Iowa, IA

Supporting personnel at Iowa:
* Ethan Ulrich
* Christian Bauer
* TBD from Hans' group
* Ipek Oguz

==Training Faculty==
* [http://www.spl.harvard.edu/~kikinis Ron Kikinis, M.D.], Surgical Planning Laboratory, Harvard Medical School, Boston, MA
* [http://www.spl.harvard.edu/~fedorov Andrey Fedorov, Ph.D.], Surgical Planning Laboratory, Harvard Medical School, Boston, MA
* [http://www.dclunie.com/ David Clunie], PixelMed Publishing

[[File:Iowa-Slicer-Workshop-2014-pic1.jpg|350px]]
[[File:Iowa-Slicer-Workshop-2014-pic2.jpg|350px]]
[[File:Iowa-Slicer-Workshop-2014-pic3.jpg|350px]]

== Agenda ==
{| border="1" cellpadding="5" width="1000"
|- style="background:#ebeced; color:#663300; font-size:120%" align="center"
| style="width:10%" | '''Time'''
| style="width:90%" colspan="2"| '''Tuesday, November 18, 2014'''
|-
| style="background:#efefef; color:#663300"| '''8:25 AM'''
| style="background:#FBF7BB; color:#522200" colspan="2"| Opening Remarks and Introduction (Milan Sonka, Reinhard Beichel)
|-
| style="background:#efefef; color:#663300"| '''8:30 AM'''
| style="background:#FBF7BB; color:#522200" colspan="2"| [[media:|3D Slicer, a Platform for Medical Image Computing]] (Ron Kikinis)
|-
| style="background:#efefef; color:#663300"| '''9:00 AM'''
| style="background:#FBF7BB; color:#522200" colspan="2"| [[media:3DDataLoadingandVisualization_SoniaPujol_slicer4.4.pdf‎ |‎ Hands-on Session 1: Data Loading and 3D Visualization (Sonia Pujol)]]
|-
| style="background:#efefef; color:#663300"| '''10:00 AM'''
| style="background:#FBF7BB; color:#522200" colspan="2"| Coffee-break
|-
| style="background:#efefef; color:#663300"| '''10:15 PM'''
| style="background:#FBF7BB; color:#522200" colspan="2"| Hands-on Session 2: Contributing extension to 3D Slicer - Part 1 (Andrey Fedorov) [http://goo.gl/IP4cdg slides]
|-
| style="background:#efefef; color:#663300"| '''11:15 PM'''
| style="background:#F5EBD6; color:#522200" colspan="2"| Lunch (will be provided)
|-
| style="background:#efefef; color:#663300"| '''12:15 PM'''
| style="background:#FBF7BB; color:#522200" colspan="2"| Hands-on Session 3: Contributing extension to 3D Slicer - Part 2 (Andrey Fedorov) [http://goo.gl/IP4cdg slides]
|-
| style="background:#efefef; color:#663300"| '''2:00 PM'''
| style="background:#F5EBD6; color:#522200" colspan="2"| Break
|-
| style="background:#efefef; color:#663300"| '''2:30 PM'''
| style="background:#FBF7BB; color:#522200" colspan="2"| DICOM Support for Quantitative Imaging (David Clunie) [[media:20141118 Iowa Clunie DICOMSupportForQuantitativeImaging.pptx]]
|-
| style="background:#efefef; color:#663300"| '''3:30 PM'''
| style="background:#FBF7BB; color:#522200" colspan="2"| QIICR: Support for advanced DICOM objects in 3D Slicer (Andrey Fedorov)
|-
| style="background:#FFFFFF; height:35px" colspan="3" |
|-style="background:#ebeced; color:#663300; font-size:120%" align="center"
| style="width:10%" | '''Time'''
| style="width:90%" colspan="2"| '''Wednesday, November 19, 2014'''
|-
| style="background:#efefef; color:#663300"| '''09:30-12:00 PM'''
| style="background:#FBF7BB; color:#522200" colspan="2"| QIICR meetings (ad hoc)
|-
|}

==Datasets==

* [[media:3DVisualizationData.zip | Dataset1: 3DVisualizationDataset.zip]]

File:20141118 Iowa Clunie DICOMSupportForQuantitativeImaging.pptx

2014-11-18T18:36:17Z

Dclunie:

QIICR 2013

2013-10-23T18:21:56Z

Dclunie: /* Day 2 (Oct 23): QIICR Participants Only */

[[Events#2013|Back to events page]]

{| align="right"
| __TOC__
|}

{|
|[[Image:QIICR_horizontal.png|450px]]

'''October 22-23, 2013'''

'''Brigham and Women's Hospital, Boston, MA'''

http://qiicr.org
|}

=Introduction=

Imaging has enormous untapped potential to improve cancer research through software to extract and process morphometric and functional biomarkers. In the era of non-cytotoxic treatment agents, multi-modality image-guided ablative therapies and rapidly evolving computational resources, quantitative imaging software can be transformative in enabling minimally invasive, objective and reproducible evaluation of cancer treatment response. Post-processing algorithms are integral to high-throughput analysis and fine- grained differentiation of multiple molecular targets. Software tools used for such analyses must be robust and validated across a range of datasets collected for multiple subjects, timepoints and institutions. Ensuring the validity of this software requires unambiguous specification of analysis protocols, documentation of the analysis results, and clear guidelines for their interpretation.

Yet cancer research data does not exist in formats that facilitate advancement of quantitative analysis and there is lack of an infrastructure to support common data exchange and method sharing. We therefore propose to develop and disseminate interoperable image informatics platform for development of software tools for quantitative imaging biomarker discovery. This platform will enable archival, organization, retrieval, dissemination of the data produced by the novel analysis tools and performance evaluation of quantitative analysis methods. Its functionality will be defined by the needs of the active research projects within the NCI Quantitative Imaging Network (QIN) in quantitative imaging biomarker development for prostate adenocarcinoma, head and neck cancer and glioblastoma multiforme. The infrastructure will be based on 3D Slicer, an NIH funded open source platform for image analysis and visualization, and will be accompanied by sample data and step-by-step documentation.

In the Quantitative Image Informatics for Cancer Research (QIICR) project we will (1) develop software tools encapsulating analysis and data organization workflows for the specific cancer imaging research applications; (2) implement support for interoperable open formats accepted in the community to enable dissemination and sharing of the analysis results; (3) develop interfaces to community cancer imaging repositories to enable archival and dissemination of the analysis results.

==Objective==
During the QIICR 2013 meeting in Boston we will:
*review the project as funded,
*hear updates on the current status of the DICOM standard and its support in major open source toolkits and platforms such as ITK and Slicer
*plan the project activities among the participants
*discuss how to communicate and coordinate among the participants

=Program=
==Day 1 (Oct 22): Public Workshop on DICOM Support for Quantitative Imaging Trials ==

This meeting is co-organized with [http://nac.spl.harvard.edu/ NAC], [http://ncigt.org/ NCIGT], [http://na-mic.org/ NA-MIC].

Times in Eastern Daylight Time (EDT). 13:30 EDT = 19:30 Central European Summer Time (CEST)

* noon: networking and brown bag working lunch (i.e. bring your own lunch - there are many nearby places to buy food) - coffee will be served
* 1:30pm-2:00pm QIICR introduction (Andrey Fedorov) [[Media:2013-QIICR-Boston-Fedorov.pdf|Slides]]
* 2:00pm-2:30pm Existing support of DICOM in 3D Slicer and CTK (Steve Pieper) [[media:Qiicr-kickoff-pieper-slicerdicom.pdf| Slides]]
* 2:30pm-2:55pm DICOM aspects of SlicerRT project (Andras Lasso) [[Media:QIICR2013-SlicerRtDicom.pdf|Slides]]
* 2:55pm-3:05pm break
* 3:05pm-3:30pm Overview of the relevant capabilities of DCMTK (Michael Onken) [[media:DCMTK-in-qiicr final.pdf|Slides]]
* 3:30pm-4:25pm Overview of the relevant parts of DICOM (David Clunie) [[Media:20131022_QIICR_DICOM.pptx| Slides]]
* 4:25pm-4:35pm break
* 4:35pm-5:30pm Structured Report templates for Cancer Clinical Trials DICOM (David Clunie) [[Media:20131022_QIICR_StructuredReportTemplates.pptx| Slides]]
* 5:30pm-6:30pm Open discussion
** [[Projects:ARRA:SlicerWF|Workflow engine]]
* 7:30pm Group dinner (everyone pays for their own, location TBD. Please notify Katie if you will join kmast@bwh.harvard.edu) (Elephant Walk, 900 Beacon St, http://elephantwalk.com/)

==Day 2 (Oct 23): QIICR Participants Only==
<br>
<gallery widths="800px" heights="300px" perrow="3" mode="packed-hover">
image:QIICR-2013-10-23.png|The internal meeting in full swing
</gallery>

(this day will be devoted to administrative, logistic, and other details. QIICR funded investigators are required to attend, if you are not a QIICR funded investigator and would like to attend, contact the program committee)
* Closed program
* 8am Working breakfast (bring your own) - coffee will be served
* 8:45am-9:00am Review the agenda for the day (Andrey Fedorov)
* 9am-noon: Presentations from DBPs and brain-storming
** 9:00am-10:00 am [http://imaging.cancer.gov/programsandresources/specializedinitiatives/qin/bwhospital Quantitative MRI of prostate cancer as a biomarker and guide for treatment] (Fiona Fennessy, BWH QIN site PI, QIICR investigator) + questions
** 10:00am-10:10am break
** 10:10am-11:00am [http://imaging.cancer.gov/programsandresources/specializedinitiatives/qin/mgh Quantitative MRI of Glioblastoma Response] (Jayashree Kalpathy-Cramer, MGH QIN site investigator, QIICR MGH site PI) + questions
** 11:00am-12:00am [http://imaging.cancer.gov/programsandresources/specializedinitiatives/qin/iowa Quantitative Imaging to Assess Response in Cancer Therapy Trials] (Reinhard Beichel, Iowa QIN site investigator, QIICR Iowa site PI) + questions
* noon-1pm brown-bag lunch
* 1:00pm-1:20pm Discussion of the DBP and related issues
** Site-specific and common informatics and data organization needs
** Organization of image-related vs clinical data - interaction between DICOM-based storage and databases
** Data sharing
** Integration of structured terminology
** Near term and end of year deliverables
* 1:20pm-3pm Discussions of day-to-day logistics issues
** communication means and frequency
*** every other week - Google hangout ? YES - Except during RSNA week
*** perhaps meet at RSNA - with other folks, perhaps Monday 2.00pm-3.00pm (CST) ?? what room
*** perhaps meet at NA-MIC project week Salt Lake City Jan 6-10
*** wiki for status updates, documentation and record-keeping: NA-MIC wiki (http://wiki.na-mic.org/Wiki/index.php/QIICR_2013), github project wiki (https://github.com/QIICR/qiicr.github.io/wiki/QIICR-Wiki-Home) (AF to demo)
*** github issues for project milestones (AF to demo)
**** large binary files on MIDAS http://www.kitware.com/source/home/post/8
*** web-site for publicity: http://qiicr.org (AF to demo)
**** git crash course and links (Slicer-specific, but many useful links) http://www.slicer.org/slicerWiki/index.php/Slicer:git-svn
*** face-to-face meetings: NA-MIC project weeks twice a year, do we need more?
** Development-related activities
*** prioritization of development tasks, SR templates, XML
*** repository of sample DICOM objects (public?)
*** cross-linking of DICOM standard ?
**** related effort: DICOM in XML (~2005) [http://medical.nema.org/Dicom/minutes/Committee/2005/2005-09-29/DICOM%20in%20XML.ppt PPT slides]. March 2013 update: ''The Secretary reported that plans are formulated for a 2013 conversion. More discussion will be needed when a more detailed proposal is available. It was noted however that Pts 3 and 16 are available in XML form, now.'' [[http://medical.nema.org/Dicom/minutes/Committee/2013/DICOM-2013-03-19-Min.docx DSC meeting minutes]
*** means of data sharing (XNAT Central? MIDAS?)

=Logistics=
==Registration==
This event is intended for the participants in the grant, but open to others as long as they are willing to participate in the DICOM-related discussions. You must have expertise on one or several of the following topics: quantitative image analysis, open source software development, imaging informatics or related topics.

Unless you received an invitation to attend this event, please [http://goo.gl/48iA94 fill this form] if you are interested to join. Organizing committee (Ron Kikinis, Steve Pieper and Andrey Fedorov) will confirm your registration and you will be added to the registered attendee list.

Registration is open until October 1 so that we can finalize the logistics.

Due to space limitations, the number of attendees is limited. After accommodating the participants in the grant, we have a "first come" policy. Please register early if you are interested in attending!

==Where==
2nd floor Demo Room, 1249 Boylston street, Boston MA ([http://goo.gl/maps/jWd32 Google map link])

Room will be finalized subject to the number of attendees registered.

==When==
October 22 and 23, 2013
==Who==
==What==

== Lodging and other considerations ==

There are [https://www.google.com/maps/preview#!q=hotels+near+1249+Boylston+St%2C+Boston%2C+MA+02215&data=!1m4!1m3!1d8747!2d-71.09578!3d42.345416!4m11!1m10!4m8!1m3!1d1517205!2d-71.6835014!3d42.0369215!3m2!1i1024!2i768!4f13.1!17b1 many hotel options near 1249 Boylston]. [http://mbta.com Public transportation in Boston] is pretty good, and you should not have issues commuting from the neighborhoods like Cambridge and Brookline. [http://thehubway.com Hubway] is a popular bike share system that you can use to get around, 24-hour access pass is $6.

Among the nearby choices:
* The Howard Johnson's next door is convenient, but run down.
* [http://www.residenceinnbackbay.com/ Residence Inn] is new and looks nice.
* People have said good things about [http://www.hotelcommonwealth.com/ the Hotel Commonwealth]
* The [http://www.bostonhotelbuckminster.com/ Hotel Buckminster] has also worked well for visitor.

'''Please Note: the Red Sox WILL BE in the [http://en.wikipedia.org/wiki/2013_World_Series World Series], which starts at 8:07pm on the second day of our meeting Wednesday, October 23. Because of this exciting event, the neighborhood will be very busy and parking will be impossible. Definitely make your reservations in advance, because rooms will be hard to come by.'''

The meeting location is easily reachable by cab or bus if the nearby hotels don't work out.

==Contact==
Andrey Fedorov, Brigham and Women's Hospital

fedorov AT bwh.harvard.edu

=Confirmed Attendees=
# Ron Kikinis, Brigham and Women's Hospital
# Andrey Fedorov, Brigham and Women's Hospital
# Steve Pieper, Isomics Inc.
# Jayashree Kalpathy-Cramer, Mass General Hospital
# Reinhard Beichel, U. of Iowa
# Fiona Fennessy, Brigham and Women's Hospital (Day 2 only)
# David Clunie, Pixelmed Publishing
# Michael Onken, Open Connections GmbH and OFFIS
# Andras Lasso, Queens U. and OCAIRO
# Csaba Pinter, Queens U. and OCAIRO
# Gordon Harris, BWH/MGH Tumor Imaging Metrics Core
# Greg Sharp, MGH Radiation Oncology
# Oleg Pianykh, Harvard
# Leonid Syrkin, DFCI
# Hans Johnson, U. Iowa
# John Evans, MGH
# Samira Farough, BWH/MGH Tumor Imaging Metrics Core
# Alireza Mehrtash, BWH
# Tobias Penzkofer, BWH
# Nathaniel Reynolds, MGH

==Tentative remote attendees==
We will host a Google Hangout for the remote attendees. Invites will be sent to the registered attendees below (only 10 participants can be accommodated)

# Sascha Zelzer, DKFZ and CTK
# Marco Nolden, DKFZ and CTK
# Jean-Christophe Fillion-Robin, Kitware Inc.
# Jörg Riesmeier, Freelancer and DCMTK
# Kent Williams, University of Iowa
# Kevin Wang, Toronto
# Jim Miller, GE Global Research
# Larry Clarke, NCI
# Yantian Zhang, NCI

=References=
* [http://imaging.cancer.gov/programsandresources/specializedinitiatives/qin NCI Quantitative Imaging Network]
* [http://projectreporter.nih.gov/project_info_description.cfm?aid=8606944&icde=17789200&ddparam=&ddvalue=&ddsub=&cr=2&csb=default&cs=ASC NIH Reporter info on QIICR]

QIICR 2013

2013-10-23T17:42:33Z

Dclunie: /* Day 2 (Oct 23): QIICR Participants Only */

[[Events#2013|Back to events page]]

{| align="right"
| __TOC__
|}

{|
|[[Image:QIICR_horizontal.png|450px]]

'''October 22-23, 2013'''

'''Brigham and Women's Hospital, Boston, MA'''

http://qiicr.org
|}

=Introduction=

Imaging has enormous untapped potential to improve cancer research through software to extract and process morphometric and functional biomarkers. In the era of non-cytotoxic treatment agents, multi-modality image-guided ablative therapies and rapidly evolving computational resources, quantitative imaging software can be transformative in enabling minimally invasive, objective and reproducible evaluation of cancer treatment response. Post-processing algorithms are integral to high-throughput analysis and fine- grained differentiation of multiple molecular targets. Software tools used for such analyses must be robust and validated across a range of datasets collected for multiple subjects, timepoints and institutions. Ensuring the validity of this software requires unambiguous specification of analysis protocols, documentation of the analysis results, and clear guidelines for their interpretation.

Yet cancer research data does not exist in formats that facilitate advancement of quantitative analysis and there is lack of an infrastructure to support common data exchange and method sharing. We therefore propose to develop and disseminate interoperable image informatics platform for development of software tools for quantitative imaging biomarker discovery. This platform will enable archival, organization, retrieval, dissemination of the data produced by the novel analysis tools and performance evaluation of quantitative analysis methods. Its functionality will be defined by the needs of the active research projects within the NCI Quantitative Imaging Network (QIN) in quantitative imaging biomarker development for prostate adenocarcinoma, head and neck cancer and glioblastoma multiforme. The infrastructure will be based on 3D Slicer, an NIH funded open source platform for image analysis and visualization, and will be accompanied by sample data and step-by-step documentation.

In the Quantitative Image Informatics for Cancer Research (QIICR) project we will (1) develop software tools encapsulating analysis and data organization workflows for the specific cancer imaging research applications; (2) implement support for interoperable open formats accepted in the community to enable dissemination and sharing of the analysis results; (3) develop interfaces to community cancer imaging repositories to enable archival and dissemination of the analysis results.

==Objective==
During the QIICR 2013 meeting in Boston we will:
*review the project as funded,
*hear updates on the current status of the DICOM standard and its support in major open source toolkits and platforms such as ITK and Slicer
*plan the project activities among the participants
*discuss how to communicate and coordinate among the participants

=Program=
==Day 1 (Oct 22): Public Workshop on DICOM Support for Quantitative Imaging Trials ==

This meeting is co-organized with [http://nac.spl.harvard.edu/ NAC], [http://ncigt.org/ NCIGT], [http://na-mic.org/ NA-MIC].

Times in Eastern Daylight Time (EDT). 13:30 EDT = 19:30 Central European Summer Time (CEST)

* noon: networking and brown bag working lunch (i.e. bring your own lunch - there are many nearby places to buy food) - coffee will be served
* 1:30pm-2:00pm QIICR introduction (Andrey Fedorov) [[Media:2013-QIICR-Boston-Fedorov.pdf|Slides]]
* 2:00pm-2:30pm Existing support of DICOM in 3D Slicer and CTK (Steve Pieper) [[media:Qiicr-kickoff-pieper-slicerdicom.pdf| Slides]]
* 2:30pm-2:55pm DICOM aspects of SlicerRT project (Andras Lasso) [[Media:QIICR2013-SlicerRtDicom.pdf|Slides]]
* 2:55pm-3:05pm break
* 3:05pm-3:30pm Overview of the relevant capabilities of DCMTK (Michael Onken) [[media:DCMTK-in-qiicr final.pdf|Slides]]
* 3:30pm-4:25pm Overview of the relevant parts of DICOM (David Clunie) [[Media:20131022_QIICR_DICOM.pptx| Slides]]
* 4:25pm-4:35pm break
* 4:35pm-5:30pm Structured Report templates for Cancer Clinical Trials DICOM (David Clunie) [[Media:20131022_QIICR_StructuredReportTemplates.pptx| Slides]]
* 5:30pm-6:30pm Open discussion
** [[Projects:ARRA:SlicerWF|Workflow engine]]
* 7:30pm Group dinner (everyone pays for their own, location TBD. Please notify Katie if you will join kmast@bwh.harvard.edu) (Elephant Walk, 900 Beacon St, http://elephantwalk.com/)

==Day 2 (Oct 23): QIICR Participants Only==
<br>
<gallery widths="800px" heights="300px" perrow="3" mode="packed-hover">
image:QIICR-2013-10-23.png|The internal meeting in full swing
</gallery>

(this day will be devoted to administrative, logistic, and other details. QIICR funded investigators are required to attend, if you are not a QIICR funded investigator and would like to attend, contact the program committee)
* Closed program
* 8am Working breakfast (bring your own) - coffee will be served
* 8:45am-9:00am Review the agenda for the day (Andrey Fedorov)
* 9am-noon: Presentations from DBPs and brain-storming
** 9:00am-10:00 am [http://imaging.cancer.gov/programsandresources/specializedinitiatives/qin/bwhospital Quantitative MRI of prostate cancer as a biomarker and guide for treatment] (Fiona Fennessy, BWH QIN site PI, QIICR investigator) + questions
** 10:00am-10:10am break
** 10:10am-11:00am [http://imaging.cancer.gov/programsandresources/specializedinitiatives/qin/mgh Quantitative MRI of Glioblastoma Response] (Jayashree Kalpathy-Cramer, MGH QIN site investigator, QIICR MGH site PI) + questions
** 11:00am-12:00am [http://imaging.cancer.gov/programsandresources/specializedinitiatives/qin/iowa Quantitative Imaging to Assess Response in Cancer Therapy Trials] (Reinhard Beichel, Iowa QIN site investigator, QIICR Iowa site PI) + questions
* noon-1pm brown-bag lunch
* 1:00pm-1:20pm Discussion of the DBP and related issues
** Site-specific and common informatics and data organization needs
** Organization of image-related vs clinical data - interaction between DICOM-based storage and databases
** Data sharing
** Integration of structured terminology
** Near term and end of year deliverables
* 1:20pm-3pm Discussions of day-to-day logistics issues
** communication means and frequency
*** every other week - Google hangout ? YES - Except during RSNA week
*** perhaps meet at RSNA - with other folks, perhaps Monday 2.00pm-3.00pm (CST) ?? what room
*** perhaps meet at NA-MIC project week Salt Lake City Jan 6-10
*** wiki for status updates, documentation and record-keeping: NA-MIC wiki (http://wiki.na-mic.org/Wiki/index.php/QIICR_2013), github project wiki (https://github.com/QIICR/qiicr.github.io/wiki/QIICR-Wiki-Home) (AF to demo)
*** github issues for project milestones (AF to demo)
*** web-site for publicity: http://qiicr.org (AF to demo)
*** face-to-face meetings: NA-MIC project weeks twice a year, do we need more?
** Development-related activities
*** prioritization of development tasks, SR templates, XML
*** repository of sample DICOM objects (public?)
*** cross-linking of DICOM standard ?
**** related effort: DICOM in XML (~2005) [http://medical.nema.org/Dicom/minutes/Committee/2005/2005-09-29/DICOM%20in%20XML.ppt PPT slides]. March 2013 update: ''The Secretary reported that plans are formulated for a 2013 conversion. More discussion will be needed when a more detailed proposal is available. It was noted however that Pts 3 and 16 are available in XML form, now.'' [[http://medical.nema.org/Dicom/minutes/Committee/2013/DICOM-2013-03-19-Min.docx DSC meeting minutes]
*** means of data sharing (XNAT Central? MIDAS?)

=Logistics=
==Registration==
This event is intended for the participants in the grant, but open to others as long as they are willing to participate in the DICOM-related discussions. You must have expertise on one or several of the following topics: quantitative image analysis, open source software development, imaging informatics or related topics.

Unless you received an invitation to attend this event, please [http://goo.gl/48iA94 fill this form] if you are interested to join. Organizing committee (Ron Kikinis, Steve Pieper and Andrey Fedorov) will confirm your registration and you will be added to the registered attendee list.

Registration is open until October 1 so that we can finalize the logistics.

Due to space limitations, the number of attendees is limited. After accommodating the participants in the grant, we have a "first come" policy. Please register early if you are interested in attending!

==Where==
2nd floor Demo Room, 1249 Boylston street, Boston MA ([http://goo.gl/maps/jWd32 Google map link])

Room will be finalized subject to the number of attendees registered.

==When==
October 22 and 23, 2013
==Who==
==What==

== Lodging and other considerations ==

There are [https://www.google.com/maps/preview#!q=hotels+near+1249+Boylston+St%2C+Boston%2C+MA+02215&data=!1m4!1m3!1d8747!2d-71.09578!3d42.345416!4m11!1m10!4m8!1m3!1d1517205!2d-71.6835014!3d42.0369215!3m2!1i1024!2i768!4f13.1!17b1 many hotel options near 1249 Boylston]. [http://mbta.com Public transportation in Boston] is pretty good, and you should not have issues commuting from the neighborhoods like Cambridge and Brookline. [http://thehubway.com Hubway] is a popular bike share system that you can use to get around, 24-hour access pass is $6.

Among the nearby choices:
* The Howard Johnson's next door is convenient, but run down.
* [http://www.residenceinnbackbay.com/ Residence Inn] is new and looks nice.
* People have said good things about [http://www.hotelcommonwealth.com/ the Hotel Commonwealth]
* The [http://www.bostonhotelbuckminster.com/ Hotel Buckminster] has also worked well for visitor.

'''Please Note: the Red Sox WILL BE in the [http://en.wikipedia.org/wiki/2013_World_Series World Series], which starts at 8:07pm on the second day of our meeting Wednesday, October 23. Because of this exciting event, the neighborhood will be very busy and parking will be impossible. Definitely make your reservations in advance, because rooms will be hard to come by.'''

The meeting location is easily reachable by cab or bus if the nearby hotels don't work out.

==Contact==
Andrey Fedorov, Brigham and Women's Hospital

fedorov AT bwh.harvard.edu

=Confirmed Attendees=
# Ron Kikinis, Brigham and Women's Hospital
# Andrey Fedorov, Brigham and Women's Hospital
# Steve Pieper, Isomics Inc.
# Jayashree Kalpathy-Cramer, Mass General Hospital
# Reinhard Beichel, U. of Iowa
# Fiona Fennessy, Brigham and Women's Hospital (Day 2 only)
# David Clunie, Pixelmed Publishing
# Michael Onken, Open Connections GmbH and OFFIS
# Andras Lasso, Queens U. and OCAIRO
# Csaba Pinter, Queens U. and OCAIRO
# Gordon Harris, BWH/MGH Tumor Imaging Metrics Core
# Greg Sharp, MGH Radiation Oncology
# Oleg Pianykh, Harvard
# Leonid Syrkin, DFCI
# Hans Johnson, U. Iowa
# John Evans, MGH
# Samira Farough, BWH/MGH Tumor Imaging Metrics Core
# Alireza Mehrtash, BWH
# Tobias Penzkofer, BWH
# Nathaniel Reynolds, MGH

==Tentative remote attendees==
We will host a Google Hangout for the remote attendees. Invites will be sent to the registered attendees below (only 10 participants can be accommodated)

# Sascha Zelzer, DKFZ and CTK
# Marco Nolden, DKFZ and CTK
# Jean-Christophe Fillion-Robin, Kitware Inc.
# Jörg Riesmeier, Freelancer and DCMTK
# Kent Williams, University of Iowa
# Kevin Wang, Toronto
# Jim Miller, GE Global Research
# Larry Clarke, NCI
# Yantian Zhang, NCI

=References=
* [http://imaging.cancer.gov/programsandresources/specializedinitiatives/qin NCI Quantitative Imaging Network]
* [http://projectreporter.nih.gov/project_info_description.cfm?aid=8606944&icde=17789200&ddparam=&ddvalue=&ddsub=&cr=2&csb=default&cs=ASC NIH Reporter info on QIICR]

QIICR 2013

2013-10-22T18:02:36Z

Dclunie: /* Day 1 (Oct 22): Public Workshop on DICOM Support for Quantitative Imaging Trials */

[[Events#2013|Back to events page]]

{| align="right"
| __TOC__
|}

{|
|[[Image:QIICR_horizontal.png|450px]]

'''October 22-23, 2013'''

'''Brigham and Women's Hospital, Boston, MA'''

http://qiicr.org
|}

=Introduction=

Imaging has enormous untapped potential to improve cancer research through software to extract and process morphometric and functional biomarkers. In the era of non-cytotoxic treatment agents, multi-modality image-guided ablative therapies and rapidly evolving computational resources, quantitative imaging software can be transformative in enabling minimally invasive, objective and reproducible evaluation of cancer treatment response. Post-processing algorithms are integral to high-throughput analysis and fine- grained differentiation of multiple molecular targets. Software tools used for such analyses must be robust and validated across a range of datasets collected for multiple subjects, timepoints and institutions. Ensuring the validity of this software requires unambiguous specification of analysis protocols, documentation of the analysis results, and clear guidelines for their interpretation.

Yet cancer research data does not exist in formats that facilitate advancement of quantitative analysis and there is lack of an infrastructure to support common data exchange and method sharing. We therefore propose to develop and disseminate interoperable image informatics platform for development of software tools for quantitative imaging biomarker discovery. This platform will enable archival, organization, retrieval, dissemination of the data produced by the novel analysis tools and performance evaluation of quantitative analysis methods. Its functionality will be defined by the needs of the active research projects within the NCI Quantitative Imaging Network (QIN) in quantitative imaging biomarker development for prostate adenocarcinoma, head and neck cancer and glioblastoma multiforme. The infrastructure will be based on 3D Slicer, an NIH funded open source platform for image analysis and visualization, and will be accompanied by sample data and step-by-step documentation.

In the Quantitative Image Informatics for Cancer Research (QIICR) project we will (1) develop software tools encapsulating analysis and data organization workflows for the specific cancer imaging research applications; (2) implement support for interoperable open formats accepted in the community to enable dissemination and sharing of the analysis results; (3) develop interfaces to community cancer imaging repositories to enable archival and dissemination of the analysis results.

==Objective==
During the QIICR 2013 meeting in Boston we will:
*review the project as funded,
*hear updates on the current status of the DICOM standard and its support in major open source toolkits and platforms such as ITK and Slicer
*plan the project activities among the participants
*discuss how to communicate and coordinate among the participants

=Program=
==Day 1 (Oct 22): Public Workshop on DICOM Support for Quantitative Imaging Trials ==

This meeting is co-organized with [http://nac.spl.harvard.edu/ NAC], [http://ncigt.org/ NCIGT], [http://na-mic.org/ NA-MIC].

Times in Eastern Daylight Time (EDT). 13:30 EDT = 19:30 Central European Summer Time (CEST)

* noon: networking and brown bag working lunch (i.e. bring your own lunch - there are many nearby places to buy food) - coffee will be served
* 1:30pm-2:00pm QIICR introduction (Andrey Fedorov) [[Media:2013-QIICR-Boston-Fedorov.pdf]]
** Scope of the project
** Overview of the driving research topics in quantitative image analysis (QIN)
** Deliverables
* 2:00pm-2:30pm Existing support of DICOM in 3D Slicer and CTK (Steve Pieper) [[media:Qiicr-kickoff-pieper-slicerdicom.pdf| Slides]]

* 2:30pm-2:55pm DICOM aspects of SlicerRT project (Andras Lasso)
* 2:55pm-3:05pm break
* 3:05pm-3:30pm Overview of the relevant capabilities of DCMTK (Michael Onken)
* 3:30pm-4:25pm Overview of the relevant parts of DICOM (David Clunie) [[Media:20131022_QIICR_DICOM.pptx| Slides]]
* 4:25pm-4:35pm break
* 4:35pm-5:30pm Structured Report templates for Cancer Clinical Trials DICOM (David Clunie) [[Media:20131022_QIICR_StructuredReportTemplates.pptx| Slides]]
* 5:30pm-6:30pm Open discussion
* 7pm Group dinner (everyone pays for their own, location TBD. Please notify Katie if you will join kmast@bwh.harvard.edu)

==Day 2 (Oct 23): QIICR Participants Only==
(this day will be devoted to administrative, logistic, and other details. QIICR funded investigators are required to attend, if you are not a QIICR funded investigator and would like to attend, contact the program committee)
* Closed program
* 8am Working breakfast (bring your own) - coffee will be served
* 8:45am-9:00am Review the agenda for the day
* 9am-noon: Presentations from DBPs and brain-storming
** 9:00am-9:30am [http://imaging.cancer.gov/programsandresources/specializedinitiatives/qin/bwhospital Quantitative MRI of prostate cancer as a biomarker and guide for treatment] (Fiona Fennessy, BWH QIN site PI, QIICR investigator) + questions
** 9:30am-10:00am [http://imaging.cancer.gov/programsandresources/specializedinitiatives/qin/mgh Quantitative MRI of Glioblastoma Response] (Jayashree Kalpathy-Cramer, MGH QIN site investigator, QIICR MGH site PI) + questions
** 10:00am-10:10am break
** 10:10am-10:40am [http://imaging.cancer.gov/programsandresources/specializedinitiatives/qin/iowa Quantitative Imaging to Assess Response in Cancer Therapy Trials] (Reinhard Beichel, Iowa QIN site investigator, QIICR Iowa site PI) + questions
** 10:40am-noon Discussion of the DBP and related issues
*** Site-specific and common informatics and data organization needs
*** Organization of image-related vs clinical data - interaction between DICOM-based storage and databases
*** Data sharing
*** Integration of structured terminology
*** Near term and end of year deliverables
* noon-1pm brown-bag lunch
* 1pm-3pm Discussions of day-to-day logistics issues
** communication means and frequency
*** every other week - Google hangout ?
*** wiki for status updates, documentation and record-keeping: NA-MIC wiki (http://wiki.na-mic.org/Wiki/index.php/QIICR_2013), github project wiki (https://github.com/QIICR/qiicr.github.io/wiki/QIICR-Wiki-Home) (AF to demo)
*** github issues for project milestones (AF to demo)
*** web-site for publicity: http://qiicr.org (AF to demo)
*** face-to-face meetings: NA-MIC project weeks twice a year, do we need more?
** Development-related activities
*** prioritization of development tasks, SR templates, XML
*** repository of sample DICOM objects (public?)
*** cross-linking of DICOM standard ?
**** related effort: DICOM in XML (~2005) [http://medical.nema.org/Dicom/minutes/Committee/2005/2005-09-29/DICOM%20in%20XML.ppt PPT slides]. March 2013 update: ''The Secretary reported that plans are formulated for a 2013 conversion. More discussion will be needed when a more detailed proposal is available. It was noted however that Pts 3 and 16 are available in XML form, now.'' [[http://medical.nema.org/Dicom/minutes/Committee/2013/DICOM-2013-03-19-Min.docx DSC meeting minutes]
*** means of data sharing (XNAT Central? MIDAS?)

=Logistics=
==Registration==
This event is intended for the participants in the grant, but open to others as long as they are willing to participate in the DICOM-related discussions. You must have expertise on one or several of the following topics: quantitative image analysis, open source software development, imaging informatics or related topics.

Unless you received an invitation to attend this event, please [http://goo.gl/48iA94 fill this form] if you are interested to join. Organizing committee (Ron Kikinis, Steve Pieper and Andrey Fedorov) will confirm your registration and you will be added to the registered attendee list.

Registration is open until October 1 so that we can finalize the logistics.

Due to space limitations, the number of attendees is limited. After accommodating the participants in the grant, we have a "first come" policy. Please register early if you are interested in attending!

==Where==
2nd floor Demo Room, 1249 Boylston street, Boston MA ([http://goo.gl/maps/jWd32 Google map link])

Room will be finalized subject to the number of attendees registered.

==When==
October 22 and 23, 2013
==Who==
==What==

== Lodging and other considerations ==

There are [https://www.google.com/maps/preview#!q=hotels+near+1249+Boylston+St%2C+Boston%2C+MA+02215&data=!1m4!1m3!1d8747!2d-71.09578!3d42.345416!4m11!1m10!4m8!1m3!1d1517205!2d-71.6835014!3d42.0369215!3m2!1i1024!2i768!4f13.1!17b1 many hotel options near 1249 Boylston]. [http://mbta.com Public transportation in Boston] is pretty good, and you should not have issues commuting from the neighborhoods like Cambridge and Brookline. [http://thehubway.com Hubway] is a popular bike share system that you can use to get around, 24-hour access pass is $6.

Among the nearby choices:
* The Howard Johnson's next door is convenient, but run down.
* [http://www.residenceinnbackbay.com/ Residence Inn] is new and looks nice.
* People have said good things about [http://www.hotelcommonwealth.com/ the Hotel Commonwealth]
* The [http://www.bostonhotelbuckminster.com/ Hotel Buckminster] has also worked well for visitor.

'''Please Note: the Red Sox WILL BE in the [http://en.wikipedia.org/wiki/2013_World_Series World Series], which starts at 8:07pm on the second day of our meeting Wednesday, October 23. Because of this exciting event, the neighborhood will be very busy and parking will be impossible. Definitely make your reservations in advance, because rooms will be hard to come by.'''

The meeting location is easily reachable by cab or bus if the nearby hotels don't work out.

==Contact==
Andrey Fedorov, Brigham and Women's Hospital

fedorov AT bwh.harvard.edu

=Confirmed Attendees=
# Ron Kikinis, Brigham and Women's Hospital
# Andrey Fedorov, Brigham and Women's Hospital
# Steve Pieper, Isomics Inc.
# Jayashree Kalpathy-Cramer, Mass General Hospital
# Reinhard Beichel, U. of Iowa
# Fiona Fennessy, Brigham and Women's Hospital (Day 2 only)
# David Clunie, Pixelmed Publishing
# Michael Onken, Open Connections GmbH and OFFIS
# Andras Lasso, Queens U. and OCAIRO
# Csaba Pinter, Queens U. and OCAIRO
# Gordon Harris, BWH/MGH Tumor Imaging Metrics Core
# Greg Sharp, MGH Radiation Oncology
# Oleg Pianykh, Harvard
# Leonid Syrkin, DFCI
# Hans Johnson, U. Iowa
# John Evans, MGH
# Samira Farough, BWH/MGH Tumor Imaging Metrics Core
# Alireza Mehrtash, BWH
# Tobias Penzkofer, BWH
# Nathaniel Reynolds, MGH

==Tentative remote attendees==
We will host a Google Hangout for the remote attendees. Invites will be sent to the registered attendees below (only 10 participants can be accommodated)

# Sascha Zelzer, DKFZ and CTK
# Marco Nolden, DKFZ and CTK
# Jean-Christophe Fillion-Robin, Kitware Inc.
# Jörg Riesmeier, Freelancer and DCMTK
# Kent Williams, University of Iowa
# Kevin Wang, Toronto
# Jim Miller, GE Global Research
# Larry Clarke, NCI
# Yantian Zhang, NCI

=References=
* [http://imaging.cancer.gov/programsandresources/specializedinitiatives/qin NCI Quantitative Imaging Network]
* [http://projectreporter.nih.gov/project_info_description.cfm?aid=8606944&icde=17789200&ddparam=&ddvalue=&ddsub=&cr=2&csb=default&cs=ASC NIH Reporter info on QIICR]

File:20131022 QIICR StructuredReportTemplates.pptx

2013-10-22T18:02:05Z

Dclunie:

QIICR 2013

2013-10-22T18:01:39Z

Dclunie: /* Day 1 (Oct 22): Public Workshop on DICOM Support for Quantitative Imaging Trials */

[[Events#2013|Back to events page]]

{| align="right"
| __TOC__
|}

{|
|[[Image:QIICR_horizontal.png|450px]]

'''October 22-23, 2013'''

'''Brigham and Women's Hospital, Boston, MA'''

http://qiicr.org
|}

=Introduction=

Imaging has enormous untapped potential to improve cancer research through software to extract and process morphometric and functional biomarkers. In the era of non-cytotoxic treatment agents, multi-modality image-guided ablative therapies and rapidly evolving computational resources, quantitative imaging software can be transformative in enabling minimally invasive, objective and reproducible evaluation of cancer treatment response. Post-processing algorithms are integral to high-throughput analysis and fine- grained differentiation of multiple molecular targets. Software tools used for such analyses must be robust and validated across a range of datasets collected for multiple subjects, timepoints and institutions. Ensuring the validity of this software requires unambiguous specification of analysis protocols, documentation of the analysis results, and clear guidelines for their interpretation.

Yet cancer research data does not exist in formats that facilitate advancement of quantitative analysis and there is lack of an infrastructure to support common data exchange and method sharing. We therefore propose to develop and disseminate interoperable image informatics platform for development of software tools for quantitative imaging biomarker discovery. This platform will enable archival, organization, retrieval, dissemination of the data produced by the novel analysis tools and performance evaluation of quantitative analysis methods. Its functionality will be defined by the needs of the active research projects within the NCI Quantitative Imaging Network (QIN) in quantitative imaging biomarker development for prostate adenocarcinoma, head and neck cancer and glioblastoma multiforme. The infrastructure will be based on 3D Slicer, an NIH funded open source platform for image analysis and visualization, and will be accompanied by sample data and step-by-step documentation.

In the Quantitative Image Informatics for Cancer Research (QIICR) project we will (1) develop software tools encapsulating analysis and data organization workflows for the specific cancer imaging research applications; (2) implement support for interoperable open formats accepted in the community to enable dissemination and sharing of the analysis results; (3) develop interfaces to community cancer imaging repositories to enable archival and dissemination of the analysis results.

==Objective==
During the QIICR 2013 meeting in Boston we will:
*review the project as funded,
*hear updates on the current status of the DICOM standard and its support in major open source toolkits and platforms such as ITK and Slicer
*plan the project activities among the participants
*discuss how to communicate and coordinate among the participants

=Program=
==Day 1 (Oct 22): Public Workshop on DICOM Support for Quantitative Imaging Trials ==

This meeting is co-organized with [http://nac.spl.harvard.edu/ NAC], [http://ncigt.org/ NCIGT], [http://na-mic.org/ NA-MIC].

Times in Eastern Daylight Time (EDT). 13:30 EDT = 19:30 Central European Summer Time (CEST)

* noon: networking and brown bag working lunch (i.e. bring your own lunch - there are many nearby places to buy food) - coffee will be served
* 1:30pm-2:00pm QIICR introduction (Andrey Fedorov) [[Media:2013-QIICR-Boston-Fedorov.pdf]]
** Scope of the project
** Overview of the driving research topics in quantitative image analysis (QIN)
** Deliverables
* 2:00pm-2:30pm Existing support of DICOM in 3D Slicer and CTK (Steve Pieper) [[media:Qiicr-kickoff-pieper-slicerdicom.pdf| Slides]]

* 2:30pm-2:55pm DICOM aspects of SlicerRT project (Andras Lasso)
* 2:55pm-3:05pm break
* 3:05pm-3:30pm Overview of the relevant capabilities of DCMTK (Michael Onken)
* 3:30pm-4:25pm Overview of the relevant parts of DICOM (David Clunie) [[Media:20131022_QIICR_DICOM.pptx| Slides]]
* 4:25pm-4:35pm break
* 4:35pm-5:30pm Structured Report templates for Cancer Clinical Trials DICOM (David Clunie)
* 5:30pm-6:30pm Open discussion
* 7pm Group dinner (everyone pays for their own, location TBD. Please notify Katie if you will join kmast@bwh.harvard.edu)

==Day 2 (Oct 23): QIICR Participants Only==
(this day will be devoted to administrative, logistic, and other details. QIICR funded investigators are required to attend, if you are not a QIICR funded investigator and would like to attend, contact the program committee)
* Closed program
* 8am Working breakfast (bring your own) - coffee will be served
* 8:45am-9:00am Review the agenda for the day
* 9am-noon: Presentations from DBPs and brain-storming
** 9:00am-9:30am [http://imaging.cancer.gov/programsandresources/specializedinitiatives/qin/bwhospital Quantitative MRI of prostate cancer as a biomarker and guide for treatment] (Fiona Fennessy, BWH QIN site PI, QIICR investigator) + questions
** 9:30am-10:00am [http://imaging.cancer.gov/programsandresources/specializedinitiatives/qin/mgh Quantitative MRI of Glioblastoma Response] (Jayashree Kalpathy-Cramer, MGH QIN site investigator, QIICR MGH site PI) + questions
** 10:00am-10:10am break
** 10:10am-10:40am [http://imaging.cancer.gov/programsandresources/specializedinitiatives/qin/iowa Quantitative Imaging to Assess Response in Cancer Therapy Trials] (Reinhard Beichel, Iowa QIN site investigator, QIICR Iowa site PI) + questions
** 10:40am-noon Discussion of the DBP and related issues
*** Site-specific and common informatics and data organization needs
*** Organization of image-related vs clinical data - interaction between DICOM-based storage and databases
*** Data sharing
*** Integration of structured terminology
*** Near term and end of year deliverables
* noon-1pm brown-bag lunch
* 1pm-3pm Discussions of day-to-day logistics issues
** communication means and frequency
*** every other week - Google hangout ?
*** wiki for status updates, documentation and record-keeping: NA-MIC wiki (http://wiki.na-mic.org/Wiki/index.php/QIICR_2013), github project wiki (https://github.com/QIICR/qiicr.github.io/wiki/QIICR-Wiki-Home) (AF to demo)
*** github issues for project milestones (AF to demo)
*** web-site for publicity: http://qiicr.org (AF to demo)
*** face-to-face meetings: NA-MIC project weeks twice a year, do we need more?
** Development-related activities
*** prioritization of development tasks, SR templates, XML
*** repository of sample DICOM objects (public?)
*** cross-linking of DICOM standard ?
**** related effort: DICOM in XML (~2005) [http://medical.nema.org/Dicom/minutes/Committee/2005/2005-09-29/DICOM%20in%20XML.ppt PPT slides]. March 2013 update: ''The Secretary reported that plans are formulated for a 2013 conversion. More discussion will be needed when a more detailed proposal is available. It was noted however that Pts 3 and 16 are available in XML form, now.'' [[http://medical.nema.org/Dicom/minutes/Committee/2013/DICOM-2013-03-19-Min.docx DSC meeting minutes]
*** means of data sharing (XNAT Central? MIDAS?)

=Logistics=
==Registration==
This event is intended for the participants in the grant, but open to others as long as they are willing to participate in the DICOM-related discussions. You must have expertise on one or several of the following topics: quantitative image analysis, open source software development, imaging informatics or related topics.

Unless you received an invitation to attend this event, please [http://goo.gl/48iA94 fill this form] if you are interested to join. Organizing committee (Ron Kikinis, Steve Pieper and Andrey Fedorov) will confirm your registration and you will be added to the registered attendee list.

Registration is open until October 1 so that we can finalize the logistics.

Due to space limitations, the number of attendees is limited. After accommodating the participants in the grant, we have a "first come" policy. Please register early if you are interested in attending!

==Where==
2nd floor Demo Room, 1249 Boylston street, Boston MA ([http://goo.gl/maps/jWd32 Google map link])

Room will be finalized subject to the number of attendees registered.

==When==
October 22 and 23, 2013
==Who==
==What==

== Lodging and other considerations ==

There are [https://www.google.com/maps/preview#!q=hotels+near+1249+Boylston+St%2C+Boston%2C+MA+02215&data=!1m4!1m3!1d8747!2d-71.09578!3d42.345416!4m11!1m10!4m8!1m3!1d1517205!2d-71.6835014!3d42.0369215!3m2!1i1024!2i768!4f13.1!17b1 many hotel options near 1249 Boylston]. [http://mbta.com Public transportation in Boston] is pretty good, and you should not have issues commuting from the neighborhoods like Cambridge and Brookline. [http://thehubway.com Hubway] is a popular bike share system that you can use to get around, 24-hour access pass is $6.

Among the nearby choices:
* The Howard Johnson's next door is convenient, but run down.
* [http://www.residenceinnbackbay.com/ Residence Inn] is new and looks nice.
* People have said good things about [http://www.hotelcommonwealth.com/ the Hotel Commonwealth]
* The [http://www.bostonhotelbuckminster.com/ Hotel Buckminster] has also worked well for visitor.

'''Please Note: the Red Sox WILL BE in the [http://en.wikipedia.org/wiki/2013_World_Series World Series], which starts at 8:07pm on the second day of our meeting Wednesday, October 23. Because of this exciting event, the neighborhood will be very busy and parking will be impossible. Definitely make your reservations in advance, because rooms will be hard to come by.'''

The meeting location is easily reachable by cab or bus if the nearby hotels don't work out.

==Contact==
Andrey Fedorov, Brigham and Women's Hospital

fedorov AT bwh.harvard.edu

=Confirmed Attendees=
# Ron Kikinis, Brigham and Women's Hospital
# Andrey Fedorov, Brigham and Women's Hospital
# Steve Pieper, Isomics Inc.
# Jayashree Kalpathy-Cramer, Mass General Hospital
# Reinhard Beichel, U. of Iowa
# Fiona Fennessy, Brigham and Women's Hospital (Day 2 only)
# David Clunie, Pixelmed Publishing
# Michael Onken, Open Connections GmbH and OFFIS
# Andras Lasso, Queens U. and OCAIRO
# Csaba Pinter, Queens U. and OCAIRO
# Gordon Harris, BWH/MGH Tumor Imaging Metrics Core
# Greg Sharp, MGH Radiation Oncology
# Oleg Pianykh, Harvard
# Leonid Syrkin, DFCI
# Hans Johnson, U. Iowa
# John Evans, MGH
# Samira Farough, BWH/MGH Tumor Imaging Metrics Core
# Alireza Mehrtash, BWH
# Tobias Penzkofer, BWH
# Nathaniel Reynolds, MGH

==Tentative remote attendees==
We will host a Google Hangout for the remote attendees. Invites will be sent to the registered attendees below (only 10 participants can be accommodated)

# Sascha Zelzer, DKFZ and CTK
# Marco Nolden, DKFZ and CTK
# Jean-Christophe Fillion-Robin, Kitware Inc.
# Jörg Riesmeier, Freelancer and DCMTK
# Kent Williams, University of Iowa
# Kevin Wang, Toronto
# Jim Miller, GE Global Research
# Larry Clarke, NCI
# Yantian Zhang, NCI

=References=
* [http://imaging.cancer.gov/programsandresources/specializedinitiatives/qin NCI Quantitative Imaging Network]
* [http://projectreporter.nih.gov/project_info_description.cfm?aid=8606944&icde=17789200&ddparam=&ddvalue=&ddsub=&cr=2&csb=default&cs=ASC NIH Reporter info on QIICR]

QIICR 2013

2013-10-22T17:59:22Z

Dclunie: /* Day 1 (Oct 22): Public Workshop on DICOM Support for Quantitative Imaging Trials */

[[Events#2013|Back to events page]]

{| align="right"
| __TOC__
|}

{|
|[[Image:QIICR_horizontal.png|450px]]

'''October 22-23, 2013'''

'''Brigham and Women's Hospital, Boston, MA'''

http://qiicr.org
|}

=Introduction=

Imaging has enormous untapped potential to improve cancer research through software to extract and process morphometric and functional biomarkers. In the era of non-cytotoxic treatment agents, multi-modality image-guided ablative therapies and rapidly evolving computational resources, quantitative imaging software can be transformative in enabling minimally invasive, objective and reproducible evaluation of cancer treatment response. Post-processing algorithms are integral to high-throughput analysis and fine- grained differentiation of multiple molecular targets. Software tools used for such analyses must be robust and validated across a range of datasets collected for multiple subjects, timepoints and institutions. Ensuring the validity of this software requires unambiguous specification of analysis protocols, documentation of the analysis results, and clear guidelines for their interpretation.

Yet cancer research data does not exist in formats that facilitate advancement of quantitative analysis and there is lack of an infrastructure to support common data exchange and method sharing. We therefore propose to develop and disseminate interoperable image informatics platform for development of software tools for quantitative imaging biomarker discovery. This platform will enable archival, organization, retrieval, dissemination of the data produced by the novel analysis tools and performance evaluation of quantitative analysis methods. Its functionality will be defined by the needs of the active research projects within the NCI Quantitative Imaging Network (QIN) in quantitative imaging biomarker development for prostate adenocarcinoma, head and neck cancer and glioblastoma multiforme. The infrastructure will be based on 3D Slicer, an NIH funded open source platform for image analysis and visualization, and will be accompanied by sample data and step-by-step documentation.

In the Quantitative Image Informatics for Cancer Research (QIICR) project we will (1) develop software tools encapsulating analysis and data organization workflows for the specific cancer imaging research applications; (2) implement support for interoperable open formats accepted in the community to enable dissemination and sharing of the analysis results; (3) develop interfaces to community cancer imaging repositories to enable archival and dissemination of the analysis results.

==Objective==
During the QIICR 2013 meeting in Boston we will:
*review the project as funded,
*hear updates on the current status of the DICOM standard and its support in major open source toolkits and platforms such as ITK and Slicer
*plan the project activities among the participants
*discuss how to communicate and coordinate among the participants

=Program=
==Day 1 (Oct 22): Public Workshop on DICOM Support for Quantitative Imaging Trials ==

This meeting is co-organized with [http://nac.spl.harvard.edu/ NAC], [http://ncigt.org/ NCIGT], [http://na-mic.org/ NA-MIC].

Times in Eastern Daylight Time (EDT). 13:30 EDT = 19:30 Central European Summer Time (CEST)

* noon: networking and brown bag working lunch (i.e. bring your own lunch - there are many nearby places to buy food) - coffee will be served
* 1:30pm-2:00pm QIICR introduction (Andrey Fedorov) [[Media:2013-QIICR-Boston-Fedorov.pdf]]
** Scope of the project
** Overview of the driving research topics in quantitative image analysis (QIN)
** Deliverables
* 2:00pm-2:30pm Existing support of DICOM in 3D Slicer and CTK (Steve Pieper) [[Qiicr-kickoff-pieper-slicerdicom.pdf| Slides]]

* 2:30pm-2:55pm DICOM aspects of SlicerRT project (Andras Lasso)
* 2:55pm-3:05pm break
* 3:05pm-3:30pm Overview of the relevant capabilities of DCMTK (Michael Onken)
* 3:30pm-4:25pm Overview of the relevant parts of DICOM (David Clunie) [[Media:20131022_QIICR_DICOM.pptx]]
* 4:25pm-4:35pm break
* 4:35pm-5:30pm Structured Report templates for Cancer Clinical Trials DICOM (David Clunie)
* 5:30pm-6:30pm Open discussion
* 7pm Group dinner (everyone pays for their own, location TBD. Please notify Katie if you will join kmast@bwh.harvard.edu)

==Day 2 (Oct 23): QIICR Participants Only==
(this day will be devoted to administrative, logistic, and other details. QIICR funded investigators are required to attend, if you are not a QIICR funded investigator and would like to attend, contact the program committee)
* Closed program
* 8am Working breakfast (bring your own) - coffee will be served
* 8:45am-9:00am Review the agenda for the day
* 9am-noon: Presentations from DBPs and brain-storming
** 9:00am-9:30am [http://imaging.cancer.gov/programsandresources/specializedinitiatives/qin/bwhospital Quantitative MRI of prostate cancer as a biomarker and guide for treatment] (Fiona Fennessy, BWH QIN site PI, QIICR investigator) + questions
** 9:30am-10:00am [http://imaging.cancer.gov/programsandresources/specializedinitiatives/qin/mgh Quantitative MRI of Glioblastoma Response] (Jayashree Kalpathy-Cramer, MGH QIN site investigator, QIICR MGH site PI) + questions
** 10:00am-10:10am break
** 10:10am-10:40am [http://imaging.cancer.gov/programsandresources/specializedinitiatives/qin/iowa Quantitative Imaging to Assess Response in Cancer Therapy Trials] (Reinhard Beichel, Iowa QIN site investigator, QIICR Iowa site PI) + questions
** 10:40am-noon Discussion of the DBP and related issues
*** Site-specific and common informatics and data organization needs
*** Organization of image-related vs clinical data - interaction between DICOM-based storage and databases
*** Data sharing
*** Integration of structured terminology
*** Near term and end of year deliverables
* noon-1pm brown-bag lunch
* 1pm-3pm Discussions of day-to-day logistics issues
** communication means and frequency
*** every other week - Google hangout ?
*** wiki for status updates, documentation and record-keeping: NA-MIC wiki (http://wiki.na-mic.org/Wiki/index.php/QIICR_2013), github project wiki (https://github.com/QIICR/qiicr.github.io/wiki/QIICR-Wiki-Home) (AF to demo)
*** github issues for project milestones (AF to demo)
*** web-site for publicity: http://qiicr.org (AF to demo)
*** face-to-face meetings: NA-MIC project weeks twice a year, do we need more?
** Development-related activities
*** prioritization of development tasks, SR templates, XML
*** repository of sample DICOM objects (public?)
*** cross-linking of DICOM standard ?
**** related effort: DICOM in XML (~2005) [http://medical.nema.org/Dicom/minutes/Committee/2005/2005-09-29/DICOM%20in%20XML.ppt PPT slides]. March 2013 update: ''The Secretary reported that plans are formulated for a 2013 conversion. More discussion will be needed when a more detailed proposal is available. It was noted however that Pts 3 and 16 are available in XML form, now.'' [[http://medical.nema.org/Dicom/minutes/Committee/2013/DICOM-2013-03-19-Min.docx DSC meeting minutes]
*** means of data sharing (XNAT Central? MIDAS?)

=Logistics=
==Registration==
This event is intended for the participants in the grant, but open to others as long as they are willing to participate in the DICOM-related discussions. You must have expertise on one or several of the following topics: quantitative image analysis, open source software development, imaging informatics or related topics.

Unless you received an invitation to attend this event, please [http://goo.gl/48iA94 fill this form] if you are interested to join. Organizing committee (Ron Kikinis, Steve Pieper and Andrey Fedorov) will confirm your registration and you will be added to the registered attendee list.

Registration is open until October 1 so that we can finalize the logistics.

Due to space limitations, the number of attendees is limited. After accommodating the participants in the grant, we have a "first come" policy. Please register early if you are interested in attending!

==Where==
2nd floor Demo Room, 1249 Boylston street, Boston MA ([http://goo.gl/maps/jWd32 Google map link])

Room will be finalized subject to the number of attendees registered.

==When==
October 22 and 23, 2013
==Who==
==What==

== Lodging and other considerations ==

There are [https://www.google.com/maps/preview#!q=hotels+near+1249+Boylston+St%2C+Boston%2C+MA+02215&data=!1m4!1m3!1d8747!2d-71.09578!3d42.345416!4m11!1m10!4m8!1m3!1d1517205!2d-71.6835014!3d42.0369215!3m2!1i1024!2i768!4f13.1!17b1 many hotel options near 1249 Boylston]. [http://mbta.com Public transportation in Boston] is pretty good, and you should not have issues commuting from the neighborhoods like Cambridge and Brookline. [http://thehubway.com Hubway] is a popular bike share system that you can use to get around, 24-hour access pass is $6.

Among the nearby choices:
* The Howard Johnson's next door is convenient, but run down.
* [http://www.residenceinnbackbay.com/ Residence Inn] is new and looks nice.
* People have said good things about [http://www.hotelcommonwealth.com/ the Hotel Commonwealth]
* The [http://www.bostonhotelbuckminster.com/ Hotel Buckminster] has also worked well for visitor.

'''Please Note: the Red Sox WILL BE in the [http://en.wikipedia.org/wiki/2013_World_Series World Series], which starts at 8:07pm on the second day of our meeting Wednesday, October 23. Because of this exciting event, the neighborhood will be very busy and parking will be impossible. Definitely make your reservations in advance, because rooms will be hard to come by.'''

The meeting location is easily reachable by cab or bus if the nearby hotels don't work out.

==Contact==
Andrey Fedorov, Brigham and Women's Hospital

fedorov AT bwh.harvard.edu

=Confirmed Attendees=
# Ron Kikinis, Brigham and Women's Hospital
# Andrey Fedorov, Brigham and Women's Hospital
# Steve Pieper, Isomics Inc.
# Jayashree Kalpathy-Cramer, Mass General Hospital
# Reinhard Beichel, U. of Iowa
# Fiona Fennessy, Brigham and Women's Hospital (Day 2 only)
# David Clunie, Pixelmed Publishing
# Michael Onken, Open Connections GmbH and OFFIS
# Andras Lasso, Queens U. and OCAIRO
# Csaba Pinter, Queens U. and OCAIRO
# Gordon Harris, BWH/MGH Tumor Imaging Metrics Core
# Greg Sharp, MGH Radiation Oncology
# Oleg Pianykh, Harvard
# Leonid Syrkin, DFCI
# Hans Johnson, U. Iowa
# John Evans, MGH
# Samira Farough, BWH/MGH Tumor Imaging Metrics Core
# Alireza Mehrtash, BWH
# Tobias Penzkofer, BWH
# Nathaniel Reynolds, MGH

==Tentative remote attendees==
We will host a Google Hangout for the remote attendees. Invites will be sent to the registered attendees below (only 10 participants can be accommodated)

# Sascha Zelzer, DKFZ and CTK
# Marco Nolden, DKFZ and CTK
# Jean-Christophe Fillion-Robin, Kitware Inc.
# Jörg Riesmeier, Freelancer and DCMTK
# Kent Williams, University of Iowa
# Kevin Wang, Toronto
# Jim Miller, GE Global Research
# Larry Clarke, NCI
# Yantian Zhang, NCI

=References=
* [http://imaging.cancer.gov/programsandresources/specializedinitiatives/qin NCI Quantitative Imaging Network]
* [http://projectreporter.nih.gov/project_info_description.cfm?aid=8606944&icde=17789200&ddparam=&ddvalue=&ddsub=&cr=2&csb=default&cs=ASC NIH Reporter info on QIICR]

File:20131022 QIICR DICOM.pptx

2013-10-22T17:58:07Z

Dclunie:

Projects:QIN:3D Slicer Annotation Image Markup:Standard Terminology

2012-09-18T14:03:33Z

Dclunie: /* SNOMED */

This is a collection of relevant pieces from:
* http://medical.nema.org/Dicom/2011/11_03pu.pdf
* http://medical.nema.org/Dicom/2011/11_16pu.pdf

=Segmentation image module attributes=

Segmentation image module attributes must in particular include the following (PS 3.3-2011, p.989):

[[Image:PS3.3-SegmentationAttributes.png]]

[[Image:PS3.3-CodedEntryData.png]]

==Code sequence attributes==

[[Image:PS3.3-CodeSequenceAttributes.png]]

==General Anatomy Macro==

The General Anatomy Macro is defined as follows (PS 3.3-2011, p.96):

[[Image:PS3.3-GeneralAnatomyMacro.png]]

==Coding Scheme Designators==

[[Image:PS3.3-CodingSchemeDesignators1.png]]

[[Image:PS3.3-CodingSchemeDesignators2.png]]

NOTE: this table is incomplete, consult PS 3.16-2011 p.43.

=RadLex=
* General information: http://rsna.org/RadLex.aspx
* License: http://rsna.org/uploadedFiles/RSNA/Content/Informatics/radlex_public_license_version_1-0-1.pdf
* Example hierarchy of the term mapping from RadLex browser (liver: http://www.radlex.org/RID/RID13419):

[[Image:RadLex_RID13419.png]]

=SNOMED=

David Clunie in email communication Sept 17, 2012:
<pre>
[...] The [DICOM] agreement with SNOMED
is to allow any implementer to use the terms included in DICOM in their
implementations and products without fee; it is not just to be able to
include them in the text of the standard documents.

So, since Slicer would be using the concepts to include in a DICOM SEG
object, you do not need any additional agreement, nor any agreement with
SNOMED to distribute the source code (my PixelMed Java DICOM toolkit is
full of SNOMED codes, for example, and I neither have not need such an
additional agreement).
</pre>

Notes on choosing SNOMED concepts when fleshing out the table, esp. regarding
anatomy. Make sure that you choose "(body structure)" concepts for anatomy,
and that you pick the "entire ..." concept rather than "structure of" etc.,
and if the choice is not obvious, include about your choice so that these can
be flagged for special attention during review.

One way to find the right SNOMED code without using one of the terminology
browsers is just to download the text files from the UMLS (from
http://www.nlm.nih.gov/research/umls/licensedcontent/snomedctfiles.html). You
will need to register and get a user name and password.

Then you can use grep as follows:

<pre>
% grep -i 'frontal lobe' sct1_Concepts_Core_INT_20110131.txt | grep -i structure | grep -i entire
180920004 0 Entire frontal lobe (body structure) 7N000 T-A2218 1
279169003 0 Entire frontal lobe gyrus (body structure) Xa10B T-A2207 1
314141005 0 Entire right frontal lobe (body structure) XaEYz T-A2213 0
314142003 0 Entire left frontal lobe (body structure) XaEZ0 T-A2214 0
362330001 0 Entire cortex of frontal lobe (body structure) XU96w T-A2211 1
362331002 0 Entire white matter of frontal lobe (body structure) XU96y T-A2221 1
</pre>

You can find this sort of thing using the UMLS Terminology Browser (at https://uts.nlm.nih.gov/metathesaurus.html), for example, as follows:

[[Image:Umls_terminologybrowser_entirefrontallobe.png]]

=Mapping Slicer GeneralAnatomy LUT to Standard Terminology (work in progress)=
Original GeneralAnatomy LUT see here: http://www.slicer.org/slicerWiki/index.php/Slicer3:2010_GenericAnatomyColors

==Original labels categorized==

{| class="wikitable sortable labelpage labelpagetable" border="1"
! integer_label
! text_label
! color
! notes
! anatomic region
! anatomic region modifier
! primary anatomic structure
! primary anatomic structure modifier
! segmented property category - CID 7150
! segmented property type
! segmented property type modifier
|-
|0
|background
|style="background:rgb(0,0,0);color:white"|rgba(0,0,0,0)
|
|
|
|
|
|
|
|
|-
|1
|tissue
|style="background:rgb(128,174,128)"|rgb(128,174,128)
| Default label for bodily tissues
|
|
|
|
| (T-D0050,SRT,"Tissue")
|
|
|-
|2
|bone
|style="background:rgb(241,214,145)"|rgb(241,214,145)
|
|
|
|
|
| (T-D0050,SRT,"Tissue")
| (T-D016E,SRT,"Bone")
|
|-
|3
|skin
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|4
|connective tissue
|style="background:rgb(111,184,210)"|rgb(111,184,210)
|
|
|
|
|
|
|
|
|-
|5
|blood
|style="background:rgb(216,101,79)"|rgb(216,101,79)
|
|
|
|
|
|
|
|
|-
|6
|organ
|style="background:rgb(221,130,101)"|rgb(221,130,101)
|
|
|
|
|
|
|
|
|-
|7
|mass
|style="background:rgb(144,238,144)"|rgb(144,238,144)
| Could be tumor or other lesion
|
|
|
|
| (M-01000,SRT,"Morphologically Altered Structure")
| (M-03000,SRT,"Mass") - CID 7159++
|
|-
|8
|muscle
|style="background:rgb(192,104,88)"|rgb(192,104,88)
|
|
|
|
|
| (T-D0050,SRT,"Tissue")
| (T-13001,SRT,"Muscle") - CID 7160 (should refactor)
|
|-
|9
|foreign object
|style="background:rgb(220,245,20)"|rgb(220,245,20)
| Implants, surical instruments, table...
|
|
|
|
| (A-00004,SRT,"Physical Object")
| (M-30400,SRT,"Foreign Body")
|
|-
|10
|waste
|style="background:rgb(78,63,0)"|rgb(78,63,0)
|
|
|
|
|
|
|
|
|-
|11
|teeth
|style="background:rgb(255,250,220)"|rgb(255,250,220)
|
|
|
|
|
|
|
|
|-
|12
|fat
|style="background:rgb(230,220,70)"|rgb(230,220,70)
|
|
|
|
|
|
|
|
|-
|13
|gray matter
|style="background:rgb(200,200,235)"|rgb(200,200,235)
| cf. 39 and 116
|
|
|
|
| (T-D0050,SRT,"Tissue")
| (T-A0096,SRT,"Gray Matter") - CID 7153 Edited
|
|-
|14
|white matter
|style="background:rgb(250,250,210)"|rgb(250,250,210)
|
|
|
|
|
| (T-D0050,SRT,"Tissue")
| (T-A0095,SRT,"White Matter") - CID 7153 Edited
|
|-
|15
|nerve
|style="background:rgb(244,214,49)"|rgb(244,214,49)
|
|
|
|
|
|
|
|
|-
|16
|vein
|style="background:rgb(0,151,206)"|rgb(0,151,206)
|
|
|
|
|
|
|
|
|-
|17
|artery
|style="background:rgb(216,101,79)"|rgb(216,101,79)
|
|
|
|
|
|
|
|
|-
|18
|capillary
|style="background:rgb(183,156,220)"|rgb(183,156,220)
|
|
|
|
|
|
|
|
|-
|19
|ligament
|style="background:rgb(183,214,211)"|rgb(183,214,211)
|
|
|
|
|
|
|
|
|-
|20
|tendon
|style="background:rgb(152,189,207)"|rgb(152,189,207)
|
|
|
|
|
|
|
|
|-
|21
|cartilage
|style="background:rgb(111,184,210)"|rgb(111,184,210)
|
|
|
|
|
|
|
|
|-
|22
|meniscus
|style="background:rgb(178,212,242)"|rgb(178,212,242)
|
|
|
|
|
|
|
|
|-
|23
|lymph node
|style="background:rgb(68,172,100)"|rgb(68,172,100)
|
|
|
|
|
|
|
|
|-
|24
|lymphatic vessel
|style="background:rgb(111,197,131)"|rgb(111,197,131)
|
|
|
|
|
|
|
|
|-
|25
|cerebro-spinal fluid
|style="background:rgb(85,188,255)"|rgb(85,188,255)
| cf. 106
|
|
|
|
| (T-D0050,SRT,"Tissue")
| (T-A1000,SRT,"Cerebrospinal Fluid") - CID 7153
|
|-
|26
|bile
|style="background:rgb(0,145,30)"|rgb(0,145,30)
|
|
|
|
|
|
|
|
|-
|27
|urine
|style="background:rgb(214,230,130)"|rgb(214,230,130)
|
|
|
|
|
|
|
|
|-
|28
|feces
|style="background:rgb(78,63,0)"|rgb(78,63,0)
|
|
|
|
|
|
|
|
|-
|29
|gas
|style="background:rgb(218,255,255)"|rgb(218,255,255)
|
|
|
|
|
|
|
|
|-
|30
|fluid
|style="background:rgb(170,250,250)"|rgb(170,250,250)
|
|
|
|
|
|
|
|
|-
|31
|edema
|style="background:rgb(140,224,228)"|rgb(140,224,228)
|
|
|
|
|
| (M-01000,SRT,"Morphologically Altered Structure")
| (M-36300,SRT,"Edema") - CID 7159++
|
|-
|32
|bleeding
|style="background:rgb(188,65,28)"|rgb(188,65,28)
|
|
|
|
|
| (M-01000,SRT,"Morphologically Altered Structure")
| (M-37000,SRT,"Hemorrhage") - CID 7159++
|
|-
|33
|necrosis
|style="background:rgb(216,191,216)"|rgb(216,191,216)
|
|
|
|
|
| (M-01000,SRT,"Morphologically Altered Structure")
| (M-54000,SRT,"Necrosis") - CID 7159
|
|-
|34
|clot
|style="background:rgb(145,60,66)"|rgb(145,60,66)
|
|
|
|
|
| (M-01000,SRT,"Morphologically Altered Structure")
| (M-35000,SRT,"Blood Clot") - CID 7159++
|
|-
|35
|embolism
|style="background:rgb(150,98,83)"|rgb(150,98,83)
|
|
|
|
|
| (M-01000,SRT,"Morphologically Altered Structure")
| (M-35300,SRT,"Embolus") - CID 7159++
|
|-
|36
|head
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|37
|central nervous system
|style="background:rgb(244,214,49)"|rgb(244,214,49)
|
|
|
|
|
|
|
|
|-
|38
|brain
|style="background:rgb(250,250,225)"|rgb(250,250,225)
|
|
|
|
|
| ? tissue or structure
| (T-A0100,SRT,"Brain") - CID 7153++
|
|-
|39
|gray matter of brain
|style="background:rgb(200,200,215)"|rgb(200,200,215)
| cf. 13 and 116
|
|
|
|
| (T-D0050,SRT,"Tissue")
| (T-A2020,SRT,"Cerebral Gray Matter") - CID 7153 Edited
|
|-
|40
|telencephalon
|style="background:rgb(68,131,98)"|rgb(68,131,98)
|
|
|
|
|
|
|
|
|-
|41
|cerebral cortex
|style="background:rgb(128,174,128)"|rgb(128,174,128)
|
|
|
|
|
|
|
|
|-
|42
|right frontal lobe
|style="background:rgb(83,146,164)"|rgb(83,146,164)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A2218,SRT,"Frontal Lobe") - CID 7153++
| (G-A100,SRT,"Right")
|-
|43
|left frontal lobe
|style="background:rgb(83,146,164)"|rgb(83,146,164)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A2218,SRT,"Frontal Lobe") - CID 7153++
| (G-A101,SRT,"Left")
|-
|44
|right temporal lobe
|style="background:rgb(162,115,105)"|rgb(162,115,105)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A2513,SRT,"Temporal Lobe") - CID 7153++
| (G-A100,SRT,"Right")
|-
|45
|left temporal lobe
|style="background:rgb(162,115,105)"|rgb(162,115,105)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A2513,SRT,"Temporal Lobe") - CID 7153++
| (G-A101,SRT,"Left")
|-
|46
|right parietal lobe
|style="background:rgb(141,93,137)"|rgb(141,93,137)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A230F,SRT,"Parietal Lobe") - CID 7153++
| (G-A100,SRT,"Right")
|-
|47
|left parietal lobe
|style="background:rgb(141,93,137)"|rgb(141,93,137)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A230F,SRT,"Parietal Lobe") - CID 7153++
| (G-A101,SRT,"Left")
|-
|48
|right occipital lobe
|style="background:rgb(182,166,110)"|rgb(182,166,110)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A240F,SRT,"Occipital Lobe") - CID 7153++
| (G-A100,SRT,"Right")
|-
|49
|left occipital lobe
|style="background:rgb(182,166,110)"|rgb(182,166,110)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A240F,SRT,"Occipital Lobe") - CID 7153++
| (G-A101,SRT,"Left")
|-
|50
|right insular lobe
|style="background:rgb(188,135,166)"|rgb(188,135,166)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A2615,SRT,"Insula") - CID 7153++
| (G-A100,SRT,"Right")
|-
|51
|left insular lobe
|style="background:rgb(188,135,166)"|rgb(188,135,166)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A2615,SRT,"Insula") - CID 7153++
| (G-A101,SRT,"Left")
|-
|52
|right limbic lobe
|style="background:rgb(154,150,201)"|rgb(154,150,201)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A0036,SRT,"Limbic Lobe") - CID 7153++
| (G-A100,SRT,"Right")
|-
|53
|left limbic lobe
|style="background:rgb(154,150,201)"|rgb(154,150,201)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A0036,SRT,"Limbic Lobe") - CID 7153++
| (G-A101,SRT,"Left")
|-
|54
|right striatum
|style="background:rgb(177,140,190)"|rgb(177,140,190)
|
|
|
|
|
|
|
|
|-
|55
|left striatum
|style="background:rgb(177,140,190)"|rgb(177,140,190)
|
|
|
|
|
|
|
|
|-
|56
|right caudate nucleus
|style="background:rgb(30,111,85)"|rgb(30,111,85)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A3201,SRT,"Caudate Nucleus") - CID 7153++
| (G-A100,SRT,"Right")
|-
|57
|left caudate nucleus
|style="background:rgb(30,111,85)"|rgb(30,111,85)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A3201,SRT,"Caudate Nucleus") - CID 7153++
| (G-A101,SRT,"Left")
|-
|58
|right putamen
|style="background:rgb(210,157,166)"|rgb(210,157,166)
|
|
|
|
|
|
|
|
|-
|59
|left putamen
|style="background:rgb(210,157,166)"|rgb(210,157,166)
|
|
|
|
|
|
|
|
|-
|60
|right pallidum
|style="background:rgb(48,129,126)"|rgb(48,129,126)
|
|
|
|
|
|
|
|
|-
|61
|left pallidum
|style="background:rgb(48,129,126)"|rgb(48,129,126)
|
|
|
|
|
|
|
|
|-
|62
|right amygdaloid complex
|style="background:rgb(98,153,112)"|rgb(98,153,112)
|
|
|
|
|
|
|
|
|-
|63
|left amygdaloid complex
|style="background:rgb(98,153,112)"|rgb(98,153,112)
|
|
|
|
|
|
|
|
|-
|64
|diencephalon
|style="background:rgb(69,110,53)"|rgb(69,110,53)
|
|
|
|
|
|
|
|
|-
|65
|thalamus
|style="background:rgb(166,113,137)"|rgb(166,113,137)
|
|
|
|
|
|
|
|
|-
|66
|right thalamus
|style="background:rgb(122,101,38)"|rgb(122,101,38)
|
|
|
|
|
|
|
|
|-
|67
|left thalamus
|style="background:rgb(122,101,38)"|rgb(122,101,38)
|
|
|
|
|
|
|
|
|-
|68
|pineal gland
|style="background:rgb(253,135,192)"|rgb(253,135,192)
|
|
|
|
|
|
|
|
|-
|69
|midbrain
|style="background:rgb(145,92,109)"|rgb(145,92,109)
|
|
|
|
|
|
|
|
|-
|70
|substantia nigra
|style="background:rgb(46,101,131)"|rgb(46,101,131)
|
|
|
|
|
|
|
|
|-
|71
|right substantia nigra
|style="background:rgb(0,108,112)"|rgb(0,108,112)
|
|
|
|
|
|
|
|
|-
|72
|left substantia nigra
|style="background:rgb(0,108,112)"|rgb(0,108,112)
|
|
|
|
|
|
|
|
|-
|73
|cerebral white matter
|style="background:rgb(250,250,225)"|rgb(250,250,225)
|
|
|
|
|
|
|
|
|-
|74
|right superior longitudinal fasciculus
|style="background:rgb(127,150,88)"|rgb(127,150,88)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A2820,SRT,"Superior Longitudinal Fasciculus") - CID 7153++
| (G-A100,SRT,"Right")
|-
|75
|left superior longitudinal fasciculus
|style="background:rgb(127,150,88)"|rgb(127,150,88)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A2820,SRT,"Superior Longitudinal Fasciculus") - CID 7153++
| (G-A101,SRT,"Left")
|-
|76
|right inferior longitudinal fasciculus
|style="background:rgb(159,116,163)"|rgb(159,116,163)
|
|
|
|
|
|
|
|
|-
|77
|left inferior longitudinal fasciculus
|style="background:rgb(159,116,163)"|rgb(159,116,163)
|
|
|
|
|
|
|
|
|-
|78
|right arcuate fasciculus
|style="background:rgb(125,102,154)"|rgb(125,102,154)
| DC: SNOMED needs fixing - specifies arcuate as synonym (ratehr than part of) superior longitudinal fasciculus
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (276650,FMA,"Arcuate Fasciculus") - CID 7153++
| (G-A100,SRT,"Right")
|-
|79
|left arcuate fasciculus
|style="background:rgb(125,102,154)"|rgb(125,102,154)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (276650,FMA,"Arcuate Fasciculus") - CID 7153++
| (G-A101,SRT,"Left")
|-
|80
|right uncinate fasciculus
|style="background:rgb(106,174,155)"|rgb(106,174,155)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A2831,SRT,"Uncinate Fasciculus") - CID 7153++
| (G-A100,SRT,"Right")
|-
|81
|left uncinate fasciculus
|style="background:rgb(106,174,155)"|rgb(106,174,155)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A2831,SRT,"Uncinate Fasciculus") - CID 7153++
| (G-A101,SRT,"Left")
|-
|82
|right cingulum bundle
|style="background:rgb(154,146,83)"|rgb(154,146,83)
|
|
|
|
|
|
|
|
|-
|83
|left cingulum bundle
|style="background:rgb(154,146,83)"|rgb(154,146,83)
|
|
|
|
|
|
|
|
|-
|84
|projection fibers
|style="background:rgb(126,126,55)"|rgb(126,126,55)
|
|
|
|
|
|
|
|
|-
|85
|right corticospinal tract
|style="background:rgb(201,160,133)"|rgb(201,160,133)
|
|
|
|
|
|
|
|
|-
|86
|left corticospinal tract
|style="background:rgb(201,160,133)"|rgb(201,160,133)
|
|
|
|
|
|
|
|
|-
|87
|right optic radiation
|style="background:rgb(78,152,141)"|rgb(78,152,141)
|
|
|
|
|
|
|
|
|-
|88
|left optic radiation
|style="background:rgb(78,152,141)"|rgb(78,152,141)
|
|
|
|
|
|
|
|
|-
|89
|right medial lemniscus
|style="background:rgb(174,140,103)"|rgb(174,140,103)
|
|
|
|
|
|
|
|
|-
|90
|left medial lemniscus
|style="background:rgb(174,140,103)"|rgb(174,140,103)
|
|
|
|
|
|
|
|
|-
|91
|right superior cerebellar peduncle
|style="background:rgb(139,126,177)"|rgb(139,126,177)
|
|
|
|
|
|
|
|
|-
|92
|left superior cerebellar peduncle
|style="background:rgb(139,126,177)"|rgb(139,126,177)
|
|
|
|
|
|
|
|
|-
|93
|right middle cerebellar peduncle
|style="background:rgb(148,120,72)"|rgb(148,120,72)
|
|
|
|
|
|
|
|
|-
|94
|left middle cerebellar peduncle
|style="background:rgb(148,120,72)"|rgb(148,120,72)
|
|
|
|
|
|
|
|
|-
|95
|right inferior cerebellar peduncle
|style="background:rgb(186,135,135)"|rgb(186,135,135)
|
|
|
|
|
|
|
|
|-
|96
|left inferior cerebellar peduncle
|style="background:rgb(186,135,135)"|rgb(186,135,135)
|
|
|
|
|
|
|
|
|-
|97
|optic chiasm
|style="background:rgb(99,106,24)"|rgb(99,106,24)
|
|
|
|
|
|
|
|
|-
|98
|right optic tract
|style="background:rgb(156,171,108)"|rgb(156,171,108)
|
|
|
|
|
|
|
|
|-
|99
|left optic tract
|style="background:rgb(156,171,108)"|rgb(156,171,108)
|
|
|
|
|
|
|
|
|-
|100
|right fornix
|style="background:rgb(64,123,147)"|rgb(64,123,147)
|
|
|
|
|
|
|
|
|-
|101
|left fornix
|style="background:rgb(64,123,147)"|rgb(64,123,147)
|
|
|
|
|
|
|
|
|-
|102
|commissural fibers
|style="background:rgb(138,95,74)"|rgb(138,95,74)
|
|
|
|
|
|
|
|
|-
|103
|corpus callosum
|style="background:rgb(97,113,158)"|rgb(97,113,158)
|
|
|
|
|
|
|
|
|-
|104
|posterior commissure
|style="background:rgb(126,161,197)"|rgb(126,161,197)
|
|
|
|
|
|
|
|
|-
|105
|cerebellar white matter
|style="background:rgb(194,195,164)"|rgb(194,195,164)
|
|
|
|
|
|
| (T-A6080,SRT,"Cerebellar White Matter") - CID 7153++
|
|-
|106
|CSF space
|style="background:rgb(85,188,255)"|rgb(85,188,255)
| DC: cf. 25; is this one supposed to be brain-specific? assume so
|
|
|
|
|
| (T-A0109,SRT,"Brain Cerebrospinal Fluid Pathway") - CID 7153++
|
|-
|107
|ventricles of brain
|style="background:rgb(88,106,215)"|rgb(88,106,215)
|
|
|
|
|
|
|
|
|-
|108
|right lateral ventricle
|style="background:rgb(88,106,215)"|rgb(88,106,215)
|
|
|
|
|
|
|
|
|-
|109
|left lateral ventricle
|style="background:rgb(88,106,215)"|rgb(88,106,215)
|
|
|
|
|
|
|
|
|-
|110
|right third ventricle
|style="background:rgb(88,106,215)"|rgb(88,106,215)
|
|
|
|
|
|
|
|
|-
|111
|left third ventricle
|style="background:rgb(88,106,215)"|rgb(88,106,215)
|
|
|
|
|
|
|
|
|-
|112
|cerebral aqueduct
|style="background:rgb(88,106,215)"|rgb(88,106,215)
|
|
|
|
|
|
|
|
|-
|113
|fourth ventricle
|style="background:rgb(88,106,215)"|rgb(88,106,215)
|
|
|
|
|
|
|
|
|-
|114
|subarachnoid space
|style="background:rgb(88,106,215)"|rgb(88,106,215)
|
|
|
|
|
|
|
|
|-
|115
|spinal cord
|style="background:rgb(244,214,49)"|rgb(244,214,49)
|
|
|
|
|
|
|
|
|-
|116
|gray matter of spinal cord
|style="background:rgb(200,200,215)"|rgb(200,200,215)
| cf. 7 and 39
|
|
|
|
|
| (T-A7020,SRT,"Spinal Cord Gray Matter") - CID 7153++
|
|-
|117
|white matter of spinal cord
|style="background:rgb(250,250,225)"|rgb(250,250,225)
|
|
|
|
|
|
| (T-A7070,SRT,"Spinal Cord White Matter") - CID 7153++
|
|-
|118
|endocrine system of brain
|style="background:rgb(82,174,128)"|rgb(82,174,128)
|
|
|
|
|
|
|
|
|-
|119
|pituitary gland
|style="background:rgb(57,157,110)"|rgb(57,157,110)
|
|
|
|
|
|
|
|
|-
|120
|adenohypophysis
|style="background:rgb(60,143,83)"|rgb(60,143,83)
|
|
|
|
|
|
|
|
|-
|121
|neurohypophysis
|style="background:rgb(92,162,109)"|rgb(92,162,109)
|
|
|
|
|
|
|
|
|-
|122
|meninges
|style="background:rgb(255,244,209)"|rgb(255,244,209)
|
|
|
|
|
|
| (T-A1110,SRT,"Meninges") - CID 7153
|
|-
|123
|dura mater
|style="background:rgb(255,244,209)"|rgb(255,244,209)
|
|
|
|
|
|
|
|
|-
|124
|arachnoid
|style="background:rgb(255,244,209)"|rgb(255,244,209)
|
|
|
|
|
|
|
|
|-
|125
|pia mater
|style="background:rgb(255,244,209)"|rgb(255,244,209)
|
|
|
|
|
|
|
|
|-
|126
|muscles of head
|style="background:rgb(201,121,77)"|rgb(201,121,77)
|
|
|
|
|
|
|
|
|-
|127
|salivary glands
|style="background:rgb(70,163,117)"|rgb(70,163,117)
|
|
|
|
|
|
|
|
|-
|128
|lips
|style="background:rgb(188,91,95)"|rgb(188,91,95)
|
|
|
|
|
|
|
|
|-
|129
|nose
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|130
|tongue
|style="background:rgb(166,84,94)"|rgb(166,84,94)
|
|
|
|
|
|
|
|
|-
|131
|soft palate
|style="background:rgb(182,105,107)"|rgb(182,105,107)
|
|
|
|
|
|
|
|
|-
|132
|right inner ear
|style="background:rgb(229,147,118)"|rgb(229,147,118)
|
|
|
|
|
|
|
|
|-
|133
|left inner ear
|style="background:rgb(229,147,118)"|rgb(229,147,118)
|
|
|
|
|
|
|
|
|-
|134
|right external ear
|style="background:rgb(174,122,90)"|rgb(174,122,90)
|
|
|
|
|
|
|
|
|-
|135
|left external ear
|style="background:rgb(174,122,90)"|rgb(174,122,90)
|
|
|
|
|
|
|
|
|-
|136
|right middle ear
|style="background:rgb(201,112,73)"|rgb(201,112,73)
|
|
|
|
|
|
|
|
|-
|137
|left middle ear
|style="background:rgb(201,112,73)"|rgb(201,112,73)
|
|
|
|
|
|
|
|
|-
|138
|right eyeball
|style="background:rgb(194,142,0)"|rgb(194,142,0)
|
|
|
|
|
|
|
|
|-
|139
|left eyeball
|style="background:rgb(194,142,0)"|rgb(194,142,0)
|
|
|
|
|
|
|
|
|-
|140
|skull
|style="background:rgb(241,213,144)"|rgb(241,213,144)
|
|
|
|
|
|
| (T-11100,SRT,"Skull") - CID 7153
|
|-
|141
|right frontal bone
|style="background:rgb(203,179,77)"|rgb(203,179,77)
|
|
|
|
|
|
|
|
|-
|142
|left frontal bone
|style="background:rgb(203,179,77)"|rgb(203,179,77)
|
|
|
|
|
|
|
|
|-
|143
|right parietal bone
|style="background:rgb(229,204,109)"|rgb(229,204,109)
|
|
|
|
|
|
|
|
|-
|144
|left parietal bone
|style="background:rgb(229,204,109)"|rgb(229,204,109)
|
|
|
|
|
|
|
|
|-
|145
|right temporal bone
|style="background:rgb(255,243,152)"|rgb(255,243,152)
|
|
|
|
|
|
|
|
|-
|146
|left temporal bone
|style="background:rgb(255,243,152)"|rgb(255,243,152)
|
|
|
|
|
|
|
|
|-
|147
|right sphenoid bone
|style="background:rgb(209,185,85)"|rgb(209,185,85)
|
|
|
|
|
|
|
|
|-
|148
|left sphenoid bone
|style="background:rgb(209,185,85)"|rgb(209,185,85)
|
|
|
|
|
|
|
|
|-
|149
|right ethmoid bone
|style="background:rgb(248,223,131)"|rgb(248,223,131)
|
|
|
|
|
|
|
|
|-
|150
|left ethmoid bone
|style="background:rgb(248,223,131)"|rgb(248,223,131)
|
|
|
|
|
|
|
|
|-
|151
|occipital bone
|style="background:rgb(255,230,138)"|rgb(255,230,138)
|
|
|
|
|
|
|
|
|-
|152
|maxilla
|style="background:rgb(196,172,68)"|rgb(196,172,68)
|
|
|
|
|
|
|
|
|-
|153
|right zygomatic bone
|style="background:rgb(255,255,167)"|rgb(255,255,167)
| DC: ? use more general (T-111BE,SRT,"Zygoma"); also, where is the left one ??
| (T-11167,SRT,"Zygomatic arch") - CID 4028
| (G-A100,SRT,"Right")
|
|
|
|
|
|-
|154
|right lacrimal bone
|style="background:rgb(255,250,160)"|rgb(255,250,160)
|
|
|
|
|
|
|
|
|-
|155
|vomer bone
|style="background:rgb(255,237,145)"|rgb(255,237,145)
|
|
|
|
|
|
|
|
|-
|156
|right palatine bone
|style="background:rgb(242,217,123)"|rgb(242,217,123)
|
| (T-111A8,SRT,"Palatine Bone")
| (G-A100,SRT,"Right")
|
|
|
|
|
|-
|157
|left palatine bone
|style="background:rgb(242,217,123)"|rgb(242,217,123)
|
| (T-111A8,SRT,"Palatine Bone")
| (G-A101,SRT,"Left")
|
|
|
|
|
|-
|158
|mandible
|style="background:rgb(222,198,101)"|rgb(222,198,101)
|
|
|
|
|
|
|
|
|-
|159
|neck
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|160
|muscles of neck
|style="background:rgb(213,124,109)"|rgb(213,124,109)
|
|
|
|
|
|
|
|
|-
|161
|pharynx
|style="background:rgb(184,105,108)"|rgb(184,105,108)
|
|
|
|
|
|
|
|
|-
|162
|larynx
|style="background:rgb(150,208,243)"|rgb(150,208,243)
|
|
|
|
|
|
|
|
|-
|163
|thyroid gland
|style="background:rgb(62,162,114)"|rgb(62,162,114)
|
|
|
|
|
|
|
|
|-
|164
|right parathyroid glands
|style="background:rgb(62,162,114)"|rgb(62,162,114)
|
|
|
|
|
|
|
|
|-
|165
|left parathyroid glands
|style="background:rgb(62,162,114)"|rgb(62,162,114)
|
|
|
|
|
|
|
|
|-
|166
|skeleton of neck
|style="background:rgb(242,206,142)"|rgb(242,206,142)
|
|
|
|
|
|
|
|
|-
|167
|hyoid bone
|style="background:rgb(250,210,139)"|rgb(250,210,139)
|
|
|
|
|
|
|
|
|-
|168
|cervical vertebral column
|style="background:rgb(255,255,207)"|rgb(255,255,207)
|
|
|
|
|
|
|
|
|-
|169
|thorax
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|170
|trachea
|style="background:rgb(182,228,255)"|rgb(182,228,255)
|
|
|
|
|
|
|
|
|-
|171
|bronchi
|style="background:rgb(175,216,244)"|rgb(175,216,244)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-26000,SRT,"Bronchi") - CID 7155
|
|-
|172
|right lung
|style="background:rgb(197,165,145)"|rgb(197,165,145)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-28000,SRT,"Lung") - CID 7155
| (G-A100,SRT,"Right")
|-
|173
|left lung
|style="background:rgb(197,165,145)"|rgb(197,165,145)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-28000,SRT,"Lung") - CID 7155
| (G-A101,SRT,"Left")
|-
|174
|superior lobe of right lung
|style="background:rgb(172,138,115)"|rgb(172,138,115)
|
|
|
|
|
|
|
|
|-
|175
|superior lobe of left lung
|style="background:rgb(172,138,115)"|rgb(172,138,115)
|
|
|
|
|
|
|
|
|-
|176
|middle lobe of right lung
|style="background:rgb(202,164,140)"|rgb(202,164,140)
|
|
|
|
|
|
|
|
|-
|177
|inferior lobe of right lung
|style="background:rgb(224,186,162)"|rgb(224,186,162)
|
|
|
|
|
|
|
|
|-
|178
|inferior lobe of left lung
|style="background:rgb(224,186,162)"|rgb(224,186,162)
|
|
|
|
|
|
|
|
|-
|179
|pleura
|style="background:rgb(255,245,217)"|rgb(255,245,217)
|
|
|
|
|
|
|
|
|-
|180
|heart
|style="background:rgb(206,110,84)"|rgb(206,110,84)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-32000,SRT,"Heart") - CID 7152
|
|-
|181
|right atrium
|style="background:rgb(210,115,89)"|rgb(210,115,89)
|
|
|
|
|
|
|
|
|-
|182
|left atrium
|style="background:rgb(203,108,81)"|rgb(203,108,81)
|
|
|
|
|
|
|
|
|-
|183
|atrial septum
|style="background:rgb(233,138,112)"|rgb(233,138,112)
|
|
|
|
|
|
|
|
|-
|184
|ventricular septum
|style="background:rgb(195,100,73)"|rgb(195,100,73)
|
|
|
|
|
|
|
|
|-
|185
|right ventricle of heart
|style="background:rgb(181,85,57)"|rgb(181,85,57)
| DC: SRT code is precordinated; no need for laterality modifier
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-32500,SRT,"Right Ventricle") - CID 7152
|
|-
|186
|left ventricle of heart
|style="background:rgb(152,55,13)"|rgb(152,55,13)
| DC: SRT code is precordinated; no need for laterality modifier
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-32600,SRT,"Left Ventricle") - CID 7152
|
|-
|187
|mitral valve
|style="background:rgb(159,63,27)"|rgb(159,63,27)
|
|
|
|
|
|
|
|
|-
|188
|tricuspid valve
|style="background:rgb(166,70,38)"|rgb(166,70,38)
|
|
|
|
|
|
|
|
|-
|189
|aortic valve
|style="background:rgb(218,123,97)"|rgb(218,123,97)
|
|
|
|
|
|
|
|
|-
|190
|pulmonary valve
|style="background:rgb(225,130,104)"|rgb(225,130,104)
|
|
|
|
|
|
|
|
|-
|191
|aorta
|style="background:rgb(224,97,76)"|rgb(224,97,76)
| DC: ? need specific parts (ascending, arch, descending thoracic, abdominal)
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-42000,SRT,"Aorta") - CID 7152
|
|-
|192
|pericardium
|style="background:rgb(255,244,209)"|rgb(255,244,209)
|
|
|
|
|
|
|
|
|-
|193
|pericardial cavity
|style="background:rgb(184,122,154)"|rgb(184,122,154)
|
|
|
|
|
|
|
|
|-
|194
|esophagus
|style="background:rgb(211,171,143)"|rgb(211,171,143)
|
|
|
|
|
|
|
|
|-
|195
|thymus
|style="background:rgb(47,150,103)"|rgb(47,150,103)
|
|
|
|
|
|
|
|
|-
|196
|mediastinum
|style="background:rgb(255,244,209)"|rgb(255,244,209)
|
|
|
|
|
|
|
|
|-
|197
|skin of thoracic wall
|style="background:rgb(173,121,88)"|rgb(173,121,88)
|
|
|
|
|
|
|
|
|-
|198
|muscles of thoracic wall
|style="background:rgb(188,95,76)"|rgb(188,95,76)
|
|
|
|
|
|
|
|
|-
|199
|skeleton of thorax
|style="background:rgb(255,239,172)"|rgb(255,239,172)
|
|
|
|
|
|
|
|
|-
|200
|thoracic vertebral column
|style="background:rgb(226,202,134)"|rgb(226,202,134)
|
|
|
|
|
|
|
|
|-
|201
|ribs
|style="background:rgb(253,232,158)"|rgb(253,232,158)
|
|
|
|
|
|
|
|
|-
|202
|sternum
|style="background:rgb(244,217,154)"|rgb(244,217,154)
|
|
|
|
|
|
|
|
|-
|203
|right clavicle
|style="background:rgb(205,179,108)"|rgb(205,179,108)
|
|
|
|
|
|
|
|
|-
|204
|left clavicle
|style="background:rgb(205,179,108)"|rgb(205,179,108)
|
|
|
|
|
|
|
|
|-
|205
|abdominal cavity
|style="background:rgb(186,124,161)"|rgb(186,124,161)
|
|
|
|
|
|
|
|
|-
|206
|abdomen
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|207
|peritoneum
|style="background:rgb(255,255,220)"|rgb(255,255,220)
|
|
|
|
|
|
|
|
|-
|208
|omentum
|style="background:rgb(234,234,194)"|rgb(234,234,194)
|
|
|
|
|
|
|
|
|-
|209
|peritoneal cavity
|style="background:rgb(204,142,178)"|rgb(204,142,178)
|
|
|
|
|
|
|
|
|-
|210
|retroperitoneal space
|style="background:rgb(180,119,153)"|rgb(180,119,153)
|
|
|
|
|
|
|
|
|-
|211
|stomach
|style="background:rgb(216,132,105)"|rgb(216,132,105)
|
|
|
|
|
|
|
|
|-
|212
|duodenum
|style="background:rgb(255,253,229)"|rgb(255,253,229)
|
|
|
|
|
|
|
|
|-
|213
|small bowel
|style="background:rgb(205,167,142)"|rgb(205,167,142)
|
|
|
|
|
|
|
|
|-
|214
|colon
|style="background:rgb(204,168,143)"|rgb(204,168,143)
|
|
|
|
|
|
|
|
|-
|215
|anus
|style="background:rgb(255,224,199)"|rgb(255,224,199)
|
|
|
|
|
|
|
|
|-
|216
|liver
|style="background:rgb(221,130,101)"|rgb(221,130,101)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-62000,SRT,"Liver") - CID 7154
|
|-
|217
|biliary tree
|style="background:rgb(0,145,30)"|rgb(0,145,30)
|
|
|
|
|
|
|
|
|-
|218
|gallbladder
|style="background:rgb(139,150,98)"|rgb(139,150,98)
|
|
|
|
|
|
|
|
|-
|219
|pancreas
|style="background:rgb(249,180,111)"|rgb(249,180,111)
|
|
|
|
|
|
|
|
|-
|220
|spleen
|style="background:rgb(157,108,162)"|rgb(157,108,162)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-C3000,SRT,"Spleen) - CID 7154
|
|-
|221
|urinary system
|style="background:rgb(203,136,116)"|rgb(203,136,116)
|
|
|
|
|
|
|
|
|-
|222
|right kidney
|style="background:rgb(185,102,83)"|rgb(185,102,83)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-71000,SRT,"Kidney") - CID 7154
| (G-A100,SRT,"Right")
|-
|223
|left kidney
|style="background:rgb(185,102,83)"|rgb(185,102,83)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-71000,SRT,"Kidney") - CID 7154
| (G-A101,SRT,"Left")
|-
|224
|right ureter
|style="background:rgb(247,182,164)"|rgb(247,182,164)
|
|
|
|
|
|
|
|
|-
|225
|left ureter
|style="background:rgb(247,182,164)"|rgb(247,182,164)
|
|
|
|
|
|
|
|
|-
|226
|urinary bladder
|style="background:rgb(222,154,132)"|rgb(222,154,132)
|
|
|
|
|
|
|
|
|-
|227
|urethra
|style="background:rgb(124,186,223)"|rgb(124,186,223)
|
|
|
|
|
|
|
|
|-
|228
|right adrenal gland
|style="background:rgb(249,186,150)"|rgb(249,186,150)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-B3000,SRT,"Adrenal Gland")
| (G-A100,SRT,"Right")
|-
|229
|left adrenal gland
|style="background:rgb(249,186,150)"|rgb(249,186,150)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-B3000,SRT,"Adrenal Gland")
| (G-A101,SRT,"Left")
|-
|230
|female internal genitalia
|style="background:rgb(244,170,147)"|rgb(244,170,147)
|
|
|
|
|
|
|
|
|-
|231
|uterus
|style="background:rgb(255,181,158)"|rgb(255,181,158)
|
|
|
|
|
|
|
|
|-
|232
|right fallopian tube
|style="background:rgb(255,190,165)"|rgb(255,190,165)
|
|
|
|
|
|
|
|
|-
|233
|left fallopian tube
|style="background:rgb(227,153,130)"|rgb(227,153,130)
|
|
|
|
|
|
|
|
|-
|234
|right ovary
|style="background:rgb(213,141,113)"|rgb(213,141,113)
|
|
|
|
|
|
|
|
|-
|235
|left ovary
|style="background:rgb(213,141,113)"|rgb(213,141,113)
|
|
|
|
|
|
|
|
|-
|236
|vagina
|style="background:rgb(193,123,103)"|rgb(193,123,103)
|
|
|
|
|
|
|
|
|-
|237
|male internal genitalia
|style="background:rgb(216,146,127)"|rgb(216,146,127)
|
|
|
|
|
|
|
|
|-
|238
|prostate
|style="background:rgb(230,158,140)"|rgb(230,158,140)
|
|
|
|
|
|
|
|
|-
|239
|right seminal vesicle
|style="background:rgb(245,172,147)"|rgb(245,172,147)
|
|
|
|
|
|
|
|
|-
|240
|left seminal vesicle
|style="background:rgb(245,172,147)"|rgb(245,172,147)
|
|
|
|
|
|
|
|
|-
|241
|right deferent duct
|style="background:rgb(241,172,151)"|rgb(241,172,151)
|
|
|
|
|
|
|
|
|-
|242
|left deferent duct
|style="background:rgb(241,172,151)"|rgb(241,172,151)
|
|
|
|
|
|
|
|
|-
|243
|skin of abdominal wall
|style="background:rgb(177,124,92)"|rgb(177,124,92)
|
|
|
|
|
|
|
|
|-
|244
|muscles of abdominal wall
|style="background:rgb(171,85,68)"|rgb(171,85,68)
|
|
|
|
|
|
|
|
|-
|245
|skeleton of abdomen
|style="background:rgb(217,198,131)"|rgb(217,198,131)
|
|
|
|
|
|
|
|
|-
|246
|lumbar vertebral column
|style="background:rgb(212,188,102)"|rgb(212,188,102)
|
|
|
|
|
|
|
|
|-
|247
|female external genitalia
|style="background:rgb(185,135,134)"|rgb(185,135,134)
|
|
|
|
|
|
|
|
|-
|248
|male external genitalia
|style="background:rgb(185,135,134)"|rgb(185,135,134)
|
|
|
|
|
|
|
|
|-
|249
|skeleton of upper limb
|style="background:rgb(198,175,125)"|rgb(198,175,125)
|
|
|
|
|
|
|
|
|-
|250
|muscles of upper limb
|style="background:rgb(194,98,79)"|rgb(194,98,79)
|
|
|
|
|
|
|
|
|-
|251
|right upper limb
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|252
|left upper limb
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|253
|right shoulder
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|254
|left shoulder
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|255
|right arm
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|256
|left arm
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|257
|right elbow
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|258
|left elbow
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|259
|right forearm
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|260
|left forearm
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|261
|right wrist
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|262
|left wrist
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|263
|right hand
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|264
|left hand
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|265
|skeleton of lower limb
|style="background:rgb(255,238,170)"|rgb(255,238,170)
|
|
|
|
|
|
|
|
|-
|266
|muscles of lower limb
|style="background:rgb(206,111,93)"|rgb(206,111,93)
|
|
|
|
|
|
|
|
|-
|267
|right lower limb
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|268
|left lower limb
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|269
|right hip
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|270
|left hip
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|271
|right thigh
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|272
|left thigh
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|273
|right knee
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|274
|left knee
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|275
|right leg
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|276
|left leg
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|277
|right foot
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|278
|left foot
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|279
|peripheral nervous system
|style="background:rgb(216,186,0)"|rgb(216,186,0)
|
|
|
|
|
|
|
|
|-
|280
|autonomic nerve
|style="background:rgb(255,226,77)"|rgb(255,226,77)
|
|
|
|
|
|
|
|
|-
|281
|sympathetic trunk
|style="background:rgb(255,243,106)"|rgb(255,243,106)
|
|
|
|
|
|
|
|
|-
|282
|cranial nerves
|style="background:rgb(255,234,92)"|rgb(255,234,92)
|
|
|
|
|
|
|
|
|-
|283
|vagus nerve
|style="background:rgb(240,210,35)"|rgb(240,210,35)
|
|
|
|
|
|
|
|
|-
|284
|peripheral nerve
|style="background:rgb(224,194,0)"|rgb(224,194,0)
|
|
|
|
|
|
|
|
|-
|285
|circulatory system
|style="background:rgb(213,99,79)"|rgb(213,99,79)
|
|
|
|
|
|
|
|
|-
|286
|systemic arterial system
|style="background:rgb(217,102,81)"|rgb(217,102,81)
|
|
|
|
|
|
|
|
|-
|287
|systemic venous system
|style="background:rgb(0,147,202)"|rgb(0,147,202)
|
|
|
|
|
|
|
|
|-
|288
|pulmonary arterial system
|style="background:rgb(0,122,171)"|rgb(0,122,171)
|
|
|
|
|
|
|
|
|-
|289
|pulmonary venous system
|style="background:rgb(186,77,64)"|rgb(186,77,64)
|
|
|
|
|
|
|
|
|-
|290
|lymphatic system
|style="background:rgb(111,197,131)"|rgb(111,197,131)
|
|
|
|
|
|
|
|
|-
|291
|needle
|style="background:rgb(240,255,30)"|rgb(240,255,30)
|
|
|
|
|
| (A-00004,SRT,"Physical Object")
| (A-30360,SRT,"Needle") - CID 7157++
|
|-
|292
|region 0
|style="background:rgb(185,232,61)"|rgb(185,232,61)
|
|
|
|
|
|
|
|
|-
|293
|region 1
|style="background:rgb(0,226,255)"|rgb(0,226,255)
|
|
|
|
|
|
|
|
|-
|294
|region 2
|style="background:rgb(251,159,255)"|rgb(251,159,255)
|
|
|
|
|
|
|
|
|-
|295
|region 3
|style="background:rgb(230,169,29)"|rgb(230,169,29)
|
|
|
|
|
|
|
|
|-
|296
|region 4
|style="background:rgb(0,194,113)"|rgb(0,194,113)
|
|
|
|
|
|
|
|
|-
|297
|region 5
|style="background:rgb(104,160,249)"|rgb(104,160,249)
|
|
|
|
|
|
|
|
|-
|298
|region 6
|style="background:rgb(221,108,158)"|rgb(221,108,158)
|
|
|
|
|
|
|
|
|-
|299
|region 7
|style="background:rgb(137,142,0)"|rgb(137,142,0)
|
|
|
|
|
|
|
|
|-
|300
|region 8
|style="background:rgb(230,70,0)"|rgb(230,70,0)
|
|
|
|
|
|
|
|
|-
|301
|region 9
|style="background:rgb(0,147,0)"|rgb(0,147,0)
|
|
|
|
|
|
|
|
|-
|302
|region 10
|style="background:rgb(0,147,248)"|rgb(0,147,248)
|
|
|
|
|
|
|
|
|-
|303
|region 11
|style="background:rgb(231,0,206)"|rgb(231,0,206)
|
|
|
|
|
|
|
|
|-
|304
|region 12
|style="background:rgb(129,78,0)"|rgb(129,78,0)
|
|
|
|
|
|
|
|
|-
|305
|region 13
|style="background:rgb(0,116,0)"|rgb(0,116,0)
|
|
|
|
|
|
|
|
|-
|306
|region 14
|style="background:rgb(0,0,255)"|rgb(0,0,255)
|
|
|
|
|
|
|
|
|-
|307
|region 15
|style="background:rgb(157,0,0)"|rgb(157,0,0)
|
|
|
|
|
|
|
|
|-
|308
|unknown
|style="background:rgb(100,100,130)"|rgb(100,100,130)
|
|
|
|
|
|
|
|
|-
|309
|cyst
|style="background:rgb(205,205,100)"|rgb(205,205,100)
|
|
|
|
|
| (M-01000,SRT,"Morphologically Altered Structure")
| (M-3340A,SRT,"Cyst") - CID 7159
|
|-
|}

==New labels added==

{| class="wikitable sortable labelpage labelpagetable" border="1"
! integer_label
! text_label
! color
! notes
! anatomic region
! anatomic region modifier
! primary anatomic structure
! primary anatomic structure modifier
! segmented property category - CID 7150
! segmented property type
! segmented property type modifier
|-
| ??
|rectum
|style="background:rgb(0,0,0);color:white"|rgba(?,?,?,?)
|
|
|
|
|
| (M-01000,SRT,"Morphologically Altered Structure")
| (M-3340A,SRT,"Cyst") - CID 7159
|
|-
| ??
| left testis
|style="background:rgb(0,0,0);color:white"|rgba(?,?,?,?)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-94000,SRT,"Testis") - CID 7160
|
|-
| ??
| right testis
|style="background:rgb(0,0,0);color:white"|rgba(?,?,?,?)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-94000,SRT,"Testis") - CID 7160
|
|-
| ??
| cervix
|style="background:rgb(0,0,0);color:white"|rgba(?,?,?,?)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-83200,SRT,"Cervix") - CID 7160
|
|-
| ??
| diaphragm
|style="background:rgb(0,0,0);color:white"|rgba(?,?,?,?)
| DC: ? need left/right - probably not
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-D3400,SRT,"Diaphragm) - CID 7155
|
|-
| ??
| table
|style="background:rgb(0,0,0);color:white"|rgba(?,?,?,?)
| DC: cf. 9 - table detection is handled specifically by some systems
|
|
|
|
| (A-00004,SRT,"Physical Object")
| (A-17350,SRT,"Table") - CID 7158
|
|-
| ??
| clothing
|style="background:rgb(0,0,0);color:white"|rgba(?,?,?,?)
| cf. 9
|
|
|
|
| (A-00004,SRT,"Physical Object")
| (A-00916,SRT,"Clothing") - CID 7158
|
|-
|}

Segmentation objects allow to encode recommended display color in "Recommended Display CIELab Value" (0062,000D) attribute; these values are encoded in [http://en.wikipedia.org/wiki/Lab_color_space CIALab].

Projects:QIN:3D Slicer Annotation Image Markup:Standard Terminology

2012-09-18T13:55:39Z

Dclunie: /* SNOMED */

This is a collection of relevant pieces from:
* http://medical.nema.org/Dicom/2011/11_03pu.pdf
* http://medical.nema.org/Dicom/2011/11_16pu.pdf

=Segmentation image module attributes=

Segmentation image module attributes must in particular include the following (PS 3.3-2011, p.989):

[[Image:PS3.3-SegmentationAttributes.png]]

[[Image:PS3.3-CodedEntryData.png]]

==Code sequence attributes==

[[Image:PS3.3-CodeSequenceAttributes.png]]

==General Anatomy Macro==

The General Anatomy Macro is defined as follows (PS 3.3-2011, p.96):

[[Image:PS3.3-GeneralAnatomyMacro.png]]

==Coding Scheme Designators==

[[Image:PS3.3-CodingSchemeDesignators1.png]]

[[Image:PS3.3-CodingSchemeDesignators2.png]]

NOTE: this table is incomplete, consult PS 3.16-2011 p.43.

=RadLex=
* General information: http://rsna.org/RadLex.aspx
* License: http://rsna.org/uploadedFiles/RSNA/Content/Informatics/radlex_public_license_version_1-0-1.pdf
* Example hierarchy of the term mapping from RadLex browser (liver: http://www.radlex.org/RID/RID13419):

[[Image:RadLex_RID13419.png]]

=SNOMED=

David Clunie in email communication Sept 17, 2012:
<pre>
[...] The [DICOM] agreement with SNOMED
is to allow any implementer to use the terms included in DICOM in their
implementations and products without fee; it is not just to be able to
include them in the text of the standard documents.

So, since Slicer would be using the concepts to include in a DICOM SEG
object, you do not need any additional agreement, nor any agreement with
SNOMED to distribute the source code (my PixelMed Java DICOM toolkit is
full of SNOMED codes, for example, and I neither have not need such an
additional agreement).
</pre>

Notes on choosing SNOMED concepts when fleshing out the table, esp. regarding
anatomy. Make sure that you choose "(body structure)" concepts for anatomy,
and that you pick the "entire ..." concept rather than "structure of" etc.,
and if the choice is not obvious, include about your choice so that these can
be flagged for special attention during review.

One way to find the right SNOMED code without using one of the terminology
browsers is just to download the text files from the UMLS (from
http://www.nlm.nih.gov/research/umls/licensedcontent/snomedctfiles.html). You
will need to register and get a user name and password.

Then you can use grep as follows:

<pre>
% grep -i 'frontal lobe' sct1_Concepts_Core_INT_20110131.txt | grep -i structure | grep -i entire
180920004 0 Entire frontal lobe (body structure) 7N000 T-A2218 1
279169003 0 Entire frontal lobe gyrus (body structure) Xa10B T-A2207 1
314141005 0 Entire right frontal lobe (body structure) XaEYz T-A2213 0
314142003 0 Entire left frontal lobe (body structure) XaEZ0 T-A2214 0
362330001 0 Entire cortex of frontal lobe (body structure) XU96w T-A2211 1
362331002 0 Entire white matter of frontal lobe (body structure) XU96y T-A2221 1
</pre>

You can find this sort of thing using the UMLS Terminology Browser, for example, as follows:

[[Image:Umls_terminologybrowser_entirefrontallobe.png]]

=Mapping Slicer GeneralAnatomy LUT to Standard Terminology (work in progress)=
Original GeneralAnatomy LUT see here: http://www.slicer.org/slicerWiki/index.php/Slicer3:2010_GenericAnatomyColors

==Original labels categorized==

{| class="wikitable sortable labelpage labelpagetable" border="1"
! integer_label
! text_label
! color
! notes
! anatomic region
! anatomic region modifier
! primary anatomic structure
! primary anatomic structure modifier
! segmented property category - CID 7150
! segmented property type
! segmented property type modifier
|-
|0
|background
|style="background:rgb(0,0,0);color:white"|rgba(0,0,0,0)
|
|
|
|
|
|
|
|
|-
|1
|tissue
|style="background:rgb(128,174,128)"|rgb(128,174,128)
| Default label for bodily tissues
|
|
|
|
| (T-D0050,SRT,"Tissue")
|
|
|-
|2
|bone
|style="background:rgb(241,214,145)"|rgb(241,214,145)
|
|
|
|
|
| (T-D0050,SRT,"Tissue")
| (T-D016E,SRT,"Bone")
|
|-
|3
|skin
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|4
|connective tissue
|style="background:rgb(111,184,210)"|rgb(111,184,210)
|
|
|
|
|
|
|
|
|-
|5
|blood
|style="background:rgb(216,101,79)"|rgb(216,101,79)
|
|
|
|
|
|
|
|
|-
|6
|organ
|style="background:rgb(221,130,101)"|rgb(221,130,101)
|
|
|
|
|
|
|
|
|-
|7
|mass
|style="background:rgb(144,238,144)"|rgb(144,238,144)
| Could be tumor or other lesion
|
|
|
|
| (M-01000,SRT,"Morphologically Altered Structure")
| (M-03000,SRT,"Mass") - CID 7159++
|
|-
|8
|muscle
|style="background:rgb(192,104,88)"|rgb(192,104,88)
|
|
|
|
|
| (T-D0050,SRT,"Tissue")
| (T-13001,SRT,"Muscle") - CID 7160 (should refactor)
|
|-
|9
|foreign object
|style="background:rgb(220,245,20)"|rgb(220,245,20)
| Implants, surical instruments, table...
|
|
|
|
| (A-00004,SRT,"Physical Object")
| (M-30400,SRT,"Foreign Body")
|
|-
|10
|waste
|style="background:rgb(78,63,0)"|rgb(78,63,0)
|
|
|
|
|
|
|
|
|-
|11
|teeth
|style="background:rgb(255,250,220)"|rgb(255,250,220)
|
|
|
|
|
|
|
|
|-
|12
|fat
|style="background:rgb(230,220,70)"|rgb(230,220,70)
|
|
|
|
|
|
|
|
|-
|13
|gray matter
|style="background:rgb(200,200,235)"|rgb(200,200,235)
| cf. 39 and 116
|
|
|
|
| (T-D0050,SRT,"Tissue")
| (T-A0096,SRT,"Gray Matter") - CID 7153 Edited
|
|-
|14
|white matter
|style="background:rgb(250,250,210)"|rgb(250,250,210)
|
|
|
|
|
| (T-D0050,SRT,"Tissue")
| (T-A0095,SRT,"White Matter") - CID 7153 Edited
|
|-
|15
|nerve
|style="background:rgb(244,214,49)"|rgb(244,214,49)
|
|
|
|
|
|
|
|
|-
|16
|vein
|style="background:rgb(0,151,206)"|rgb(0,151,206)
|
|
|
|
|
|
|
|
|-
|17
|artery
|style="background:rgb(216,101,79)"|rgb(216,101,79)
|
|
|
|
|
|
|
|
|-
|18
|capillary
|style="background:rgb(183,156,220)"|rgb(183,156,220)
|
|
|
|
|
|
|
|
|-
|19
|ligament
|style="background:rgb(183,214,211)"|rgb(183,214,211)
|
|
|
|
|
|
|
|
|-
|20
|tendon
|style="background:rgb(152,189,207)"|rgb(152,189,207)
|
|
|
|
|
|
|
|
|-
|21
|cartilage
|style="background:rgb(111,184,210)"|rgb(111,184,210)
|
|
|
|
|
|
|
|
|-
|22
|meniscus
|style="background:rgb(178,212,242)"|rgb(178,212,242)
|
|
|
|
|
|
|
|
|-
|23
|lymph node
|style="background:rgb(68,172,100)"|rgb(68,172,100)
|
|
|
|
|
|
|
|
|-
|24
|lymphatic vessel
|style="background:rgb(111,197,131)"|rgb(111,197,131)
|
|
|
|
|
|
|
|
|-
|25
|cerebro-spinal fluid
|style="background:rgb(85,188,255)"|rgb(85,188,255)
| cf. 106
|
|
|
|
| (T-D0050,SRT,"Tissue")
| (T-A1000,SRT,"Cerebrospinal Fluid") - CID 7153
|
|-
|26
|bile
|style="background:rgb(0,145,30)"|rgb(0,145,30)
|
|
|
|
|
|
|
|
|-
|27
|urine
|style="background:rgb(214,230,130)"|rgb(214,230,130)
|
|
|
|
|
|
|
|
|-
|28
|feces
|style="background:rgb(78,63,0)"|rgb(78,63,0)
|
|
|
|
|
|
|
|
|-
|29
|gas
|style="background:rgb(218,255,255)"|rgb(218,255,255)
|
|
|
|
|
|
|
|
|-
|30
|fluid
|style="background:rgb(170,250,250)"|rgb(170,250,250)
|
|
|
|
|
|
|
|
|-
|31
|edema
|style="background:rgb(140,224,228)"|rgb(140,224,228)
|
|
|
|
|
| (M-01000,SRT,"Morphologically Altered Structure")
| (M-36300,SRT,"Edema") - CID 7159++
|
|-
|32
|bleeding
|style="background:rgb(188,65,28)"|rgb(188,65,28)
|
|
|
|
|
| (M-01000,SRT,"Morphologically Altered Structure")
| (M-37000,SRT,"Hemorrhage") - CID 7159++
|
|-
|33
|necrosis
|style="background:rgb(216,191,216)"|rgb(216,191,216)
|
|
|
|
|
| (M-01000,SRT,"Morphologically Altered Structure")
| (M-54000,SRT,"Necrosis") - CID 7159
|
|-
|34
|clot
|style="background:rgb(145,60,66)"|rgb(145,60,66)
|
|
|
|
|
| (M-01000,SRT,"Morphologically Altered Structure")
| (M-35000,SRT,"Blood Clot") - CID 7159++
|
|-
|35
|embolism
|style="background:rgb(150,98,83)"|rgb(150,98,83)
|
|
|
|
|
| (M-01000,SRT,"Morphologically Altered Structure")
| (M-35300,SRT,"Embolus") - CID 7159++
|
|-
|36
|head
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|37
|central nervous system
|style="background:rgb(244,214,49)"|rgb(244,214,49)
|
|
|
|
|
|
|
|
|-
|38
|brain
|style="background:rgb(250,250,225)"|rgb(250,250,225)
|
|
|
|
|
| ? tissue or structure
| (T-A0100,SRT,"Brain") - CID 7153++
|
|-
|39
|gray matter of brain
|style="background:rgb(200,200,215)"|rgb(200,200,215)
| cf. 13 and 116
|
|
|
|
| (T-D0050,SRT,"Tissue")
| (T-A2020,SRT,"Cerebral Gray Matter") - CID 7153 Edited
|
|-
|40
|telencephalon
|style="background:rgb(68,131,98)"|rgb(68,131,98)
|
|
|
|
|
|
|
|
|-
|41
|cerebral cortex
|style="background:rgb(128,174,128)"|rgb(128,174,128)
|
|
|
|
|
|
|
|
|-
|42
|right frontal lobe
|style="background:rgb(83,146,164)"|rgb(83,146,164)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A2218,SRT,"Frontal Lobe") - CID 7153++
| (G-A100,SRT,"Right")
|-
|43
|left frontal lobe
|style="background:rgb(83,146,164)"|rgb(83,146,164)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A2218,SRT,"Frontal Lobe") - CID 7153++
| (G-A101,SRT,"Left")
|-
|44
|right temporal lobe
|style="background:rgb(162,115,105)"|rgb(162,115,105)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A2513,SRT,"Temporal Lobe") - CID 7153++
| (G-A100,SRT,"Right")
|-
|45
|left temporal lobe
|style="background:rgb(162,115,105)"|rgb(162,115,105)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A2513,SRT,"Temporal Lobe") - CID 7153++
| (G-A101,SRT,"Left")
|-
|46
|right parietal lobe
|style="background:rgb(141,93,137)"|rgb(141,93,137)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A230F,SRT,"Parietal Lobe") - CID 7153++
| (G-A100,SRT,"Right")
|-
|47
|left parietal lobe
|style="background:rgb(141,93,137)"|rgb(141,93,137)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A230F,SRT,"Parietal Lobe") - CID 7153++
| (G-A101,SRT,"Left")
|-
|48
|right occipital lobe
|style="background:rgb(182,166,110)"|rgb(182,166,110)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A240F,SRT,"Occipital Lobe") - CID 7153++
| (G-A100,SRT,"Right")
|-
|49
|left occipital lobe
|style="background:rgb(182,166,110)"|rgb(182,166,110)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A240F,SRT,"Occipital Lobe") - CID 7153++
| (G-A101,SRT,"Left")
|-
|50
|right insular lobe
|style="background:rgb(188,135,166)"|rgb(188,135,166)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A2615,SRT,"Insula") - CID 7153++
| (G-A100,SRT,"Right")
|-
|51
|left insular lobe
|style="background:rgb(188,135,166)"|rgb(188,135,166)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A2615,SRT,"Insula") - CID 7153++
| (G-A101,SRT,"Left")
|-
|52
|right limbic lobe
|style="background:rgb(154,150,201)"|rgb(154,150,201)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A0036,SRT,"Limbic Lobe") - CID 7153++
| (G-A100,SRT,"Right")
|-
|53
|left limbic lobe
|style="background:rgb(154,150,201)"|rgb(154,150,201)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A0036,SRT,"Limbic Lobe") - CID 7153++
| (G-A101,SRT,"Left")
|-
|54
|right striatum
|style="background:rgb(177,140,190)"|rgb(177,140,190)
|
|
|
|
|
|
|
|
|-
|55
|left striatum
|style="background:rgb(177,140,190)"|rgb(177,140,190)
|
|
|
|
|
|
|
|
|-
|56
|right caudate nucleus
|style="background:rgb(30,111,85)"|rgb(30,111,85)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A3201,SRT,"Caudate Nucleus") - CID 7153++
| (G-A100,SRT,"Right")
|-
|57
|left caudate nucleus
|style="background:rgb(30,111,85)"|rgb(30,111,85)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A3201,SRT,"Caudate Nucleus") - CID 7153++
| (G-A101,SRT,"Left")
|-
|58
|right putamen
|style="background:rgb(210,157,166)"|rgb(210,157,166)
|
|
|
|
|
|
|
|
|-
|59
|left putamen
|style="background:rgb(210,157,166)"|rgb(210,157,166)
|
|
|
|
|
|
|
|
|-
|60
|right pallidum
|style="background:rgb(48,129,126)"|rgb(48,129,126)
|
|
|
|
|
|
|
|
|-
|61
|left pallidum
|style="background:rgb(48,129,126)"|rgb(48,129,126)
|
|
|
|
|
|
|
|
|-
|62
|right amygdaloid complex
|style="background:rgb(98,153,112)"|rgb(98,153,112)
|
|
|
|
|
|
|
|
|-
|63
|left amygdaloid complex
|style="background:rgb(98,153,112)"|rgb(98,153,112)
|
|
|
|
|
|
|
|
|-
|64
|diencephalon
|style="background:rgb(69,110,53)"|rgb(69,110,53)
|
|
|
|
|
|
|
|
|-
|65
|thalamus
|style="background:rgb(166,113,137)"|rgb(166,113,137)
|
|
|
|
|
|
|
|
|-
|66
|right thalamus
|style="background:rgb(122,101,38)"|rgb(122,101,38)
|
|
|
|
|
|
|
|
|-
|67
|left thalamus
|style="background:rgb(122,101,38)"|rgb(122,101,38)
|
|
|
|
|
|
|
|
|-
|68
|pineal gland
|style="background:rgb(253,135,192)"|rgb(253,135,192)
|
|
|
|
|
|
|
|
|-
|69
|midbrain
|style="background:rgb(145,92,109)"|rgb(145,92,109)
|
|
|
|
|
|
|
|
|-
|70
|substantia nigra
|style="background:rgb(46,101,131)"|rgb(46,101,131)
|
|
|
|
|
|
|
|
|-
|71
|right substantia nigra
|style="background:rgb(0,108,112)"|rgb(0,108,112)
|
|
|
|
|
|
|
|
|-
|72
|left substantia nigra
|style="background:rgb(0,108,112)"|rgb(0,108,112)
|
|
|
|
|
|
|
|
|-
|73
|cerebral white matter
|style="background:rgb(250,250,225)"|rgb(250,250,225)
|
|
|
|
|
|
|
|
|-
|74
|right superior longitudinal fasciculus
|style="background:rgb(127,150,88)"|rgb(127,150,88)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A2820,SRT,"Superior Longitudinal Fasciculus") - CID 7153++
| (G-A100,SRT,"Right")
|-
|75
|left superior longitudinal fasciculus
|style="background:rgb(127,150,88)"|rgb(127,150,88)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A2820,SRT,"Superior Longitudinal Fasciculus") - CID 7153++
| (G-A101,SRT,"Left")
|-
|76
|right inferior longitudinal fasciculus
|style="background:rgb(159,116,163)"|rgb(159,116,163)
|
|
|
|
|
|
|
|
|-
|77
|left inferior longitudinal fasciculus
|style="background:rgb(159,116,163)"|rgb(159,116,163)
|
|
|
|
|
|
|
|
|-
|78
|right arcuate fasciculus
|style="background:rgb(125,102,154)"|rgb(125,102,154)
| DC: SNOMED needs fixing - specifies arcuate as synonym (ratehr than part of) superior longitudinal fasciculus
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (276650,FMA,"Arcuate Fasciculus") - CID 7153++
| (G-A100,SRT,"Right")
|-
|79
|left arcuate fasciculus
|style="background:rgb(125,102,154)"|rgb(125,102,154)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (276650,FMA,"Arcuate Fasciculus") - CID 7153++
| (G-A101,SRT,"Left")
|-
|80
|right uncinate fasciculus
|style="background:rgb(106,174,155)"|rgb(106,174,155)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A2831,SRT,"Uncinate Fasciculus") - CID 7153++
| (G-A100,SRT,"Right")
|-
|81
|left uncinate fasciculus
|style="background:rgb(106,174,155)"|rgb(106,174,155)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A2831,SRT,"Uncinate Fasciculus") - CID 7153++
| (G-A101,SRT,"Left")
|-
|82
|right cingulum bundle
|style="background:rgb(154,146,83)"|rgb(154,146,83)
|
|
|
|
|
|
|
|
|-
|83
|left cingulum bundle
|style="background:rgb(154,146,83)"|rgb(154,146,83)
|
|
|
|
|
|
|
|
|-
|84
|projection fibers
|style="background:rgb(126,126,55)"|rgb(126,126,55)
|
|
|
|
|
|
|
|
|-
|85
|right corticospinal tract
|style="background:rgb(201,160,133)"|rgb(201,160,133)
|
|
|
|
|
|
|
|
|-
|86
|left corticospinal tract
|style="background:rgb(201,160,133)"|rgb(201,160,133)
|
|
|
|
|
|
|
|
|-
|87
|right optic radiation
|style="background:rgb(78,152,141)"|rgb(78,152,141)
|
|
|
|
|
|
|
|
|-
|88
|left optic radiation
|style="background:rgb(78,152,141)"|rgb(78,152,141)
|
|
|
|
|
|
|
|
|-
|89
|right medial lemniscus
|style="background:rgb(174,140,103)"|rgb(174,140,103)
|
|
|
|
|
|
|
|
|-
|90
|left medial lemniscus
|style="background:rgb(174,140,103)"|rgb(174,140,103)
|
|
|
|
|
|
|
|
|-
|91
|right superior cerebellar peduncle
|style="background:rgb(139,126,177)"|rgb(139,126,177)
|
|
|
|
|
|
|
|
|-
|92
|left superior cerebellar peduncle
|style="background:rgb(139,126,177)"|rgb(139,126,177)
|
|
|
|
|
|
|
|
|-
|93
|right middle cerebellar peduncle
|style="background:rgb(148,120,72)"|rgb(148,120,72)
|
|
|
|
|
|
|
|
|-
|94
|left middle cerebellar peduncle
|style="background:rgb(148,120,72)"|rgb(148,120,72)
|
|
|
|
|
|
|
|
|-
|95
|right inferior cerebellar peduncle
|style="background:rgb(186,135,135)"|rgb(186,135,135)
|
|
|
|
|
|
|
|
|-
|96
|left inferior cerebellar peduncle
|style="background:rgb(186,135,135)"|rgb(186,135,135)
|
|
|
|
|
|
|
|
|-
|97
|optic chiasm
|style="background:rgb(99,106,24)"|rgb(99,106,24)
|
|
|
|
|
|
|
|
|-
|98
|right optic tract
|style="background:rgb(156,171,108)"|rgb(156,171,108)
|
|
|
|
|
|
|
|
|-
|99
|left optic tract
|style="background:rgb(156,171,108)"|rgb(156,171,108)
|
|
|
|
|
|
|
|
|-
|100
|right fornix
|style="background:rgb(64,123,147)"|rgb(64,123,147)
|
|
|
|
|
|
|
|
|-
|101
|left fornix
|style="background:rgb(64,123,147)"|rgb(64,123,147)
|
|
|
|
|
|
|
|
|-
|102
|commissural fibers
|style="background:rgb(138,95,74)"|rgb(138,95,74)
|
|
|
|
|
|
|
|
|-
|103
|corpus callosum
|style="background:rgb(97,113,158)"|rgb(97,113,158)
|
|
|
|
|
|
|
|
|-
|104
|posterior commissure
|style="background:rgb(126,161,197)"|rgb(126,161,197)
|
|
|
|
|
|
|
|
|-
|105
|cerebellar white matter
|style="background:rgb(194,195,164)"|rgb(194,195,164)
|
|
|
|
|
|
| (T-A6080,SRT,"Cerebellar White Matter") - CID 7153++
|
|-
|106
|CSF space
|style="background:rgb(85,188,255)"|rgb(85,188,255)
| DC: cf. 25; is this one supposed to be brain-specific? assume so
|
|
|
|
|
| (T-A0109,SRT,"Brain Cerebrospinal Fluid Pathway") - CID 7153++
|
|-
|107
|ventricles of brain
|style="background:rgb(88,106,215)"|rgb(88,106,215)
|
|
|
|
|
|
|
|
|-
|108
|right lateral ventricle
|style="background:rgb(88,106,215)"|rgb(88,106,215)
|
|
|
|
|
|
|
|
|-
|109
|left lateral ventricle
|style="background:rgb(88,106,215)"|rgb(88,106,215)
|
|
|
|
|
|
|
|
|-
|110
|right third ventricle
|style="background:rgb(88,106,215)"|rgb(88,106,215)
|
|
|
|
|
|
|
|
|-
|111
|left third ventricle
|style="background:rgb(88,106,215)"|rgb(88,106,215)
|
|
|
|
|
|
|
|
|-
|112
|cerebral aqueduct
|style="background:rgb(88,106,215)"|rgb(88,106,215)
|
|
|
|
|
|
|
|
|-
|113
|fourth ventricle
|style="background:rgb(88,106,215)"|rgb(88,106,215)
|
|
|
|
|
|
|
|
|-
|114
|subarachnoid space
|style="background:rgb(88,106,215)"|rgb(88,106,215)
|
|
|
|
|
|
|
|
|-
|115
|spinal cord
|style="background:rgb(244,214,49)"|rgb(244,214,49)
|
|
|
|
|
|
|
|
|-
|116
|gray matter of spinal cord
|style="background:rgb(200,200,215)"|rgb(200,200,215)
| cf. 7 and 39
|
|
|
|
|
| (T-A7020,SRT,"Spinal Cord Gray Matter") - CID 7153++
|
|-
|117
|white matter of spinal cord
|style="background:rgb(250,250,225)"|rgb(250,250,225)
|
|
|
|
|
|
| (T-A7070,SRT,"Spinal Cord White Matter") - CID 7153++
|
|-
|118
|endocrine system of brain
|style="background:rgb(82,174,128)"|rgb(82,174,128)
|
|
|
|
|
|
|
|
|-
|119
|pituitary gland
|style="background:rgb(57,157,110)"|rgb(57,157,110)
|
|
|
|
|
|
|
|
|-
|120
|adenohypophysis
|style="background:rgb(60,143,83)"|rgb(60,143,83)
|
|
|
|
|
|
|
|
|-
|121
|neurohypophysis
|style="background:rgb(92,162,109)"|rgb(92,162,109)
|
|
|
|
|
|
|
|
|-
|122
|meninges
|style="background:rgb(255,244,209)"|rgb(255,244,209)
|
|
|
|
|
|
| (T-A1110,SRT,"Meninges") - CID 7153
|
|-
|123
|dura mater
|style="background:rgb(255,244,209)"|rgb(255,244,209)
|
|
|
|
|
|
|
|
|-
|124
|arachnoid
|style="background:rgb(255,244,209)"|rgb(255,244,209)
|
|
|
|
|
|
|
|
|-
|125
|pia mater
|style="background:rgb(255,244,209)"|rgb(255,244,209)
|
|
|
|
|
|
|
|
|-
|126
|muscles of head
|style="background:rgb(201,121,77)"|rgb(201,121,77)
|
|
|
|
|
|
|
|
|-
|127
|salivary glands
|style="background:rgb(70,163,117)"|rgb(70,163,117)
|
|
|
|
|
|
|
|
|-
|128
|lips
|style="background:rgb(188,91,95)"|rgb(188,91,95)
|
|
|
|
|
|
|
|
|-
|129
|nose
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|130
|tongue
|style="background:rgb(166,84,94)"|rgb(166,84,94)
|
|
|
|
|
|
|
|
|-
|131
|soft palate
|style="background:rgb(182,105,107)"|rgb(182,105,107)
|
|
|
|
|
|
|
|
|-
|132
|right inner ear
|style="background:rgb(229,147,118)"|rgb(229,147,118)
|
|
|
|
|
|
|
|
|-
|133
|left inner ear
|style="background:rgb(229,147,118)"|rgb(229,147,118)
|
|
|
|
|
|
|
|
|-
|134
|right external ear
|style="background:rgb(174,122,90)"|rgb(174,122,90)
|
|
|
|
|
|
|
|
|-
|135
|left external ear
|style="background:rgb(174,122,90)"|rgb(174,122,90)
|
|
|
|
|
|
|
|
|-
|136
|right middle ear
|style="background:rgb(201,112,73)"|rgb(201,112,73)
|
|
|
|
|
|
|
|
|-
|137
|left middle ear
|style="background:rgb(201,112,73)"|rgb(201,112,73)
|
|
|
|
|
|
|
|
|-
|138
|right eyeball
|style="background:rgb(194,142,0)"|rgb(194,142,0)
|
|
|
|
|
|
|
|
|-
|139
|left eyeball
|style="background:rgb(194,142,0)"|rgb(194,142,0)
|
|
|
|
|
|
|
|
|-
|140
|skull
|style="background:rgb(241,213,144)"|rgb(241,213,144)
|
|
|
|
|
|
| (T-11100,SRT,"Skull") - CID 7153
|
|-
|141
|right frontal bone
|style="background:rgb(203,179,77)"|rgb(203,179,77)
|
|
|
|
|
|
|
|
|-
|142
|left frontal bone
|style="background:rgb(203,179,77)"|rgb(203,179,77)
|
|
|
|
|
|
|
|
|-
|143
|right parietal bone
|style="background:rgb(229,204,109)"|rgb(229,204,109)
|
|
|
|
|
|
|
|
|-
|144
|left parietal bone
|style="background:rgb(229,204,109)"|rgb(229,204,109)
|
|
|
|
|
|
|
|
|-
|145
|right temporal bone
|style="background:rgb(255,243,152)"|rgb(255,243,152)
|
|
|
|
|
|
|
|
|-
|146
|left temporal bone
|style="background:rgb(255,243,152)"|rgb(255,243,152)
|
|
|
|
|
|
|
|
|-
|147
|right sphenoid bone
|style="background:rgb(209,185,85)"|rgb(209,185,85)
|
|
|
|
|
|
|
|
|-
|148
|left sphenoid bone
|style="background:rgb(209,185,85)"|rgb(209,185,85)
|
|
|
|
|
|
|
|
|-
|149
|right ethmoid bone
|style="background:rgb(248,223,131)"|rgb(248,223,131)
|
|
|
|
|
|
|
|
|-
|150
|left ethmoid bone
|style="background:rgb(248,223,131)"|rgb(248,223,131)
|
|
|
|
|
|
|
|
|-
|151
|occipital bone
|style="background:rgb(255,230,138)"|rgb(255,230,138)
|
|
|
|
|
|
|
|
|-
|152
|maxilla
|style="background:rgb(196,172,68)"|rgb(196,172,68)
|
|
|
|
|
|
|
|
|-
|153
|right zygomatic bone
|style="background:rgb(255,255,167)"|rgb(255,255,167)
| DC: ? use more general (T-111BE,SRT,"Zygoma"); also, where is the left one ??
| (T-11167,SRT,"Zygomatic arch") - CID 4028
| (G-A100,SRT,"Right")
|
|
|
|
|
|-
|154
|right lacrimal bone
|style="background:rgb(255,250,160)"|rgb(255,250,160)
|
|
|
|
|
|
|
|
|-
|155
|vomer bone
|style="background:rgb(255,237,145)"|rgb(255,237,145)
|
|
|
|
|
|
|
|
|-
|156
|right palatine bone
|style="background:rgb(242,217,123)"|rgb(242,217,123)
|
| (T-111A8,SRT,"Palatine Bone")
| (G-A100,SRT,"Right")
|
|
|
|
|
|-
|157
|left palatine bone
|style="background:rgb(242,217,123)"|rgb(242,217,123)
|
| (T-111A8,SRT,"Palatine Bone")
| (G-A101,SRT,"Left")
|
|
|
|
|
|-
|158
|mandible
|style="background:rgb(222,198,101)"|rgb(222,198,101)
|
|
|
|
|
|
|
|
|-
|159
|neck
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|160
|muscles of neck
|style="background:rgb(213,124,109)"|rgb(213,124,109)
|
|
|
|
|
|
|
|
|-
|161
|pharynx
|style="background:rgb(184,105,108)"|rgb(184,105,108)
|
|
|
|
|
|
|
|
|-
|162
|larynx
|style="background:rgb(150,208,243)"|rgb(150,208,243)
|
|
|
|
|
|
|
|
|-
|163
|thyroid gland
|style="background:rgb(62,162,114)"|rgb(62,162,114)
|
|
|
|
|
|
|
|
|-
|164
|right parathyroid glands
|style="background:rgb(62,162,114)"|rgb(62,162,114)
|
|
|
|
|
|
|
|
|-
|165
|left parathyroid glands
|style="background:rgb(62,162,114)"|rgb(62,162,114)
|
|
|
|
|
|
|
|
|-
|166
|skeleton of neck
|style="background:rgb(242,206,142)"|rgb(242,206,142)
|
|
|
|
|
|
|
|
|-
|167
|hyoid bone
|style="background:rgb(250,210,139)"|rgb(250,210,139)
|
|
|
|
|
|
|
|
|-
|168
|cervical vertebral column
|style="background:rgb(255,255,207)"|rgb(255,255,207)
|
|
|
|
|
|
|
|
|-
|169
|thorax
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|170
|trachea
|style="background:rgb(182,228,255)"|rgb(182,228,255)
|
|
|
|
|
|
|
|
|-
|171
|bronchi
|style="background:rgb(175,216,244)"|rgb(175,216,244)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-26000,SRT,"Bronchi") - CID 7155
|
|-
|172
|right lung
|style="background:rgb(197,165,145)"|rgb(197,165,145)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-28000,SRT,"Lung") - CID 7155
| (G-A100,SRT,"Right")
|-
|173
|left lung
|style="background:rgb(197,165,145)"|rgb(197,165,145)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-28000,SRT,"Lung") - CID 7155
| (G-A101,SRT,"Left")
|-
|174
|superior lobe of right lung
|style="background:rgb(172,138,115)"|rgb(172,138,115)
|
|
|
|
|
|
|
|
|-
|175
|superior lobe of left lung
|style="background:rgb(172,138,115)"|rgb(172,138,115)
|
|
|
|
|
|
|
|
|-
|176
|middle lobe of right lung
|style="background:rgb(202,164,140)"|rgb(202,164,140)
|
|
|
|
|
|
|
|
|-
|177
|inferior lobe of right lung
|style="background:rgb(224,186,162)"|rgb(224,186,162)
|
|
|
|
|
|
|
|
|-
|178
|inferior lobe of left lung
|style="background:rgb(224,186,162)"|rgb(224,186,162)
|
|
|
|
|
|
|
|
|-
|179
|pleura
|style="background:rgb(255,245,217)"|rgb(255,245,217)
|
|
|
|
|
|
|
|
|-
|180
|heart
|style="background:rgb(206,110,84)"|rgb(206,110,84)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-32000,SRT,"Heart") - CID 7152
|
|-
|181
|right atrium
|style="background:rgb(210,115,89)"|rgb(210,115,89)
|
|
|
|
|
|
|
|
|-
|182
|left atrium
|style="background:rgb(203,108,81)"|rgb(203,108,81)
|
|
|
|
|
|
|
|
|-
|183
|atrial septum
|style="background:rgb(233,138,112)"|rgb(233,138,112)
|
|
|
|
|
|
|
|
|-
|184
|ventricular septum
|style="background:rgb(195,100,73)"|rgb(195,100,73)
|
|
|
|
|
|
|
|
|-
|185
|right ventricle of heart
|style="background:rgb(181,85,57)"|rgb(181,85,57)
| DC: SRT code is precordinated; no need for laterality modifier
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-32500,SRT,"Right Ventricle") - CID 7152
|
|-
|186
|left ventricle of heart
|style="background:rgb(152,55,13)"|rgb(152,55,13)
| DC: SRT code is precordinated; no need for laterality modifier
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-32600,SRT,"Left Ventricle") - CID 7152
|
|-
|187
|mitral valve
|style="background:rgb(159,63,27)"|rgb(159,63,27)
|
|
|
|
|
|
|
|
|-
|188
|tricuspid valve
|style="background:rgb(166,70,38)"|rgb(166,70,38)
|
|
|
|
|
|
|
|
|-
|189
|aortic valve
|style="background:rgb(218,123,97)"|rgb(218,123,97)
|
|
|
|
|
|
|
|
|-
|190
|pulmonary valve
|style="background:rgb(225,130,104)"|rgb(225,130,104)
|
|
|
|
|
|
|
|
|-
|191
|aorta
|style="background:rgb(224,97,76)"|rgb(224,97,76)
| DC: ? need specific parts (ascending, arch, descending thoracic, abdominal)
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-42000,SRT,"Aorta") - CID 7152
|
|-
|192
|pericardium
|style="background:rgb(255,244,209)"|rgb(255,244,209)
|
|
|
|
|
|
|
|
|-
|193
|pericardial cavity
|style="background:rgb(184,122,154)"|rgb(184,122,154)
|
|
|
|
|
|
|
|
|-
|194
|esophagus
|style="background:rgb(211,171,143)"|rgb(211,171,143)
|
|
|
|
|
|
|
|
|-
|195
|thymus
|style="background:rgb(47,150,103)"|rgb(47,150,103)
|
|
|
|
|
|
|
|
|-
|196
|mediastinum
|style="background:rgb(255,244,209)"|rgb(255,244,209)
|
|
|
|
|
|
|
|
|-
|197
|skin of thoracic wall
|style="background:rgb(173,121,88)"|rgb(173,121,88)
|
|
|
|
|
|
|
|
|-
|198
|muscles of thoracic wall
|style="background:rgb(188,95,76)"|rgb(188,95,76)
|
|
|
|
|
|
|
|
|-
|199
|skeleton of thorax
|style="background:rgb(255,239,172)"|rgb(255,239,172)
|
|
|
|
|
|
|
|
|-
|200
|thoracic vertebral column
|style="background:rgb(226,202,134)"|rgb(226,202,134)
|
|
|
|
|
|
|
|
|-
|201
|ribs
|style="background:rgb(253,232,158)"|rgb(253,232,158)
|
|
|
|
|
|
|
|
|-
|202
|sternum
|style="background:rgb(244,217,154)"|rgb(244,217,154)
|
|
|
|
|
|
|
|
|-
|203
|right clavicle
|style="background:rgb(205,179,108)"|rgb(205,179,108)
|
|
|
|
|
|
|
|
|-
|204
|left clavicle
|style="background:rgb(205,179,108)"|rgb(205,179,108)
|
|
|
|
|
|
|
|
|-
|205
|abdominal cavity
|style="background:rgb(186,124,161)"|rgb(186,124,161)
|
|
|
|
|
|
|
|
|-
|206
|abdomen
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|207
|peritoneum
|style="background:rgb(255,255,220)"|rgb(255,255,220)
|
|
|
|
|
|
|
|
|-
|208
|omentum
|style="background:rgb(234,234,194)"|rgb(234,234,194)
|
|
|
|
|
|
|
|
|-
|209
|peritoneal cavity
|style="background:rgb(204,142,178)"|rgb(204,142,178)
|
|
|
|
|
|
|
|
|-
|210
|retroperitoneal space
|style="background:rgb(180,119,153)"|rgb(180,119,153)
|
|
|
|
|
|
|
|
|-
|211
|stomach
|style="background:rgb(216,132,105)"|rgb(216,132,105)
|
|
|
|
|
|
|
|
|-
|212
|duodenum
|style="background:rgb(255,253,229)"|rgb(255,253,229)
|
|
|
|
|
|
|
|
|-
|213
|small bowel
|style="background:rgb(205,167,142)"|rgb(205,167,142)
|
|
|
|
|
|
|
|
|-
|214
|colon
|style="background:rgb(204,168,143)"|rgb(204,168,143)
|
|
|
|
|
|
|
|
|-
|215
|anus
|style="background:rgb(255,224,199)"|rgb(255,224,199)
|
|
|
|
|
|
|
|
|-
|216
|liver
|style="background:rgb(221,130,101)"|rgb(221,130,101)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-62000,SRT,"Liver") - CID 7154
|
|-
|217
|biliary tree
|style="background:rgb(0,145,30)"|rgb(0,145,30)
|
|
|
|
|
|
|
|
|-
|218
|gallbladder
|style="background:rgb(139,150,98)"|rgb(139,150,98)
|
|
|
|
|
|
|
|
|-
|219
|pancreas
|style="background:rgb(249,180,111)"|rgb(249,180,111)
|
|
|
|
|
|
|
|
|-
|220
|spleen
|style="background:rgb(157,108,162)"|rgb(157,108,162)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-C3000,SRT,"Spleen) - CID 7154
|
|-
|221
|urinary system
|style="background:rgb(203,136,116)"|rgb(203,136,116)
|
|
|
|
|
|
|
|
|-
|222
|right kidney
|style="background:rgb(185,102,83)"|rgb(185,102,83)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-71000,SRT,"Kidney") - CID 7154
| (G-A100,SRT,"Right")
|-
|223
|left kidney
|style="background:rgb(185,102,83)"|rgb(185,102,83)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-71000,SRT,"Kidney") - CID 7154
| (G-A101,SRT,"Left")
|-
|224
|right ureter
|style="background:rgb(247,182,164)"|rgb(247,182,164)
|
|
|
|
|
|
|
|
|-
|225
|left ureter
|style="background:rgb(247,182,164)"|rgb(247,182,164)
|
|
|
|
|
|
|
|
|-
|226
|urinary bladder
|style="background:rgb(222,154,132)"|rgb(222,154,132)
|
|
|
|
|
|
|
|
|-
|227
|urethra
|style="background:rgb(124,186,223)"|rgb(124,186,223)
|
|
|
|
|
|
|
|
|-
|228
|right adrenal gland
|style="background:rgb(249,186,150)"|rgb(249,186,150)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-B3000,SRT,"Adrenal Gland")
| (G-A100,SRT,"Right")
|-
|229
|left adrenal gland
|style="background:rgb(249,186,150)"|rgb(249,186,150)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-B3000,SRT,"Adrenal Gland")
| (G-A101,SRT,"Left")
|-
|230
|female internal genitalia
|style="background:rgb(244,170,147)"|rgb(244,170,147)
|
|
|
|
|
|
|
|
|-
|231
|uterus
|style="background:rgb(255,181,158)"|rgb(255,181,158)
|
|
|
|
|
|
|
|
|-
|232
|right fallopian tube
|style="background:rgb(255,190,165)"|rgb(255,190,165)
|
|
|
|
|
|
|
|
|-
|233
|left fallopian tube
|style="background:rgb(227,153,130)"|rgb(227,153,130)
|
|
|
|
|
|
|
|
|-
|234
|right ovary
|style="background:rgb(213,141,113)"|rgb(213,141,113)
|
|
|
|
|
|
|
|
|-
|235
|left ovary
|style="background:rgb(213,141,113)"|rgb(213,141,113)
|
|
|
|
|
|
|
|
|-
|236
|vagina
|style="background:rgb(193,123,103)"|rgb(193,123,103)
|
|
|
|
|
|
|
|
|-
|237
|male internal genitalia
|style="background:rgb(216,146,127)"|rgb(216,146,127)
|
|
|
|
|
|
|
|
|-
|238
|prostate
|style="background:rgb(230,158,140)"|rgb(230,158,140)
|
|
|
|
|
|
|
|
|-
|239
|right seminal vesicle
|style="background:rgb(245,172,147)"|rgb(245,172,147)
|
|
|
|
|
|
|
|
|-
|240
|left seminal vesicle
|style="background:rgb(245,172,147)"|rgb(245,172,147)
|
|
|
|
|
|
|
|
|-
|241
|right deferent duct
|style="background:rgb(241,172,151)"|rgb(241,172,151)
|
|
|
|
|
|
|
|
|-
|242
|left deferent duct
|style="background:rgb(241,172,151)"|rgb(241,172,151)
|
|
|
|
|
|
|
|
|-
|243
|skin of abdominal wall
|style="background:rgb(177,124,92)"|rgb(177,124,92)
|
|
|
|
|
|
|
|
|-
|244
|muscles of abdominal wall
|style="background:rgb(171,85,68)"|rgb(171,85,68)
|
|
|
|
|
|
|
|
|-
|245
|skeleton of abdomen
|style="background:rgb(217,198,131)"|rgb(217,198,131)
|
|
|
|
|
|
|
|
|-
|246
|lumbar vertebral column
|style="background:rgb(212,188,102)"|rgb(212,188,102)
|
|
|
|
|
|
|
|
|-
|247
|female external genitalia
|style="background:rgb(185,135,134)"|rgb(185,135,134)
|
|
|
|
|
|
|
|
|-
|248
|male external genitalia
|style="background:rgb(185,135,134)"|rgb(185,135,134)
|
|
|
|
|
|
|
|
|-
|249
|skeleton of upper limb
|style="background:rgb(198,175,125)"|rgb(198,175,125)
|
|
|
|
|
|
|
|
|-
|250
|muscles of upper limb
|style="background:rgb(194,98,79)"|rgb(194,98,79)
|
|
|
|
|
|
|
|
|-
|251
|right upper limb
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|252
|left upper limb
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|253
|right shoulder
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|254
|left shoulder
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|255
|right arm
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|256
|left arm
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|257
|right elbow
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|258
|left elbow
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|259
|right forearm
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|260
|left forearm
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|261
|right wrist
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|262
|left wrist
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|263
|right hand
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|264
|left hand
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|265
|skeleton of lower limb
|style="background:rgb(255,238,170)"|rgb(255,238,170)
|
|
|
|
|
|
|
|
|-
|266
|muscles of lower limb
|style="background:rgb(206,111,93)"|rgb(206,111,93)
|
|
|
|
|
|
|
|
|-
|267
|right lower limb
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|268
|left lower limb
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|269
|right hip
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|270
|left hip
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|271
|right thigh
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|272
|left thigh
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|273
|right knee
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|274
|left knee
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|275
|right leg
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|276
|left leg
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|277
|right foot
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|278
|left foot
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|279
|peripheral nervous system
|style="background:rgb(216,186,0)"|rgb(216,186,0)
|
|
|
|
|
|
|
|
|-
|280
|autonomic nerve
|style="background:rgb(255,226,77)"|rgb(255,226,77)
|
|
|
|
|
|
|
|
|-
|281
|sympathetic trunk
|style="background:rgb(255,243,106)"|rgb(255,243,106)
|
|
|
|
|
|
|
|
|-
|282
|cranial nerves
|style="background:rgb(255,234,92)"|rgb(255,234,92)
|
|
|
|
|
|
|
|
|-
|283
|vagus nerve
|style="background:rgb(240,210,35)"|rgb(240,210,35)
|
|
|
|
|
|
|
|
|-
|284
|peripheral nerve
|style="background:rgb(224,194,0)"|rgb(224,194,0)
|
|
|
|
|
|
|
|
|-
|285
|circulatory system
|style="background:rgb(213,99,79)"|rgb(213,99,79)
|
|
|
|
|
|
|
|
|-
|286
|systemic arterial system
|style="background:rgb(217,102,81)"|rgb(217,102,81)
|
|
|
|
|
|
|
|
|-
|287
|systemic venous system
|style="background:rgb(0,147,202)"|rgb(0,147,202)
|
|
|
|
|
|
|
|
|-
|288
|pulmonary arterial system
|style="background:rgb(0,122,171)"|rgb(0,122,171)
|
|
|
|
|
|
|
|
|-
|289
|pulmonary venous system
|style="background:rgb(186,77,64)"|rgb(186,77,64)
|
|
|
|
|
|
|
|
|-
|290
|lymphatic system
|style="background:rgb(111,197,131)"|rgb(111,197,131)
|
|
|
|
|
|
|
|
|-
|291
|needle
|style="background:rgb(240,255,30)"|rgb(240,255,30)
|
|
|
|
|
| (A-00004,SRT,"Physical Object")
| (A-30360,SRT,"Needle") - CID 7157++
|
|-
|292
|region 0
|style="background:rgb(185,232,61)"|rgb(185,232,61)
|
|
|
|
|
|
|
|
|-
|293
|region 1
|style="background:rgb(0,226,255)"|rgb(0,226,255)
|
|
|
|
|
|
|
|
|-
|294
|region 2
|style="background:rgb(251,159,255)"|rgb(251,159,255)
|
|
|
|
|
|
|
|
|-
|295
|region 3
|style="background:rgb(230,169,29)"|rgb(230,169,29)
|
|
|
|
|
|
|
|
|-
|296
|region 4
|style="background:rgb(0,194,113)"|rgb(0,194,113)
|
|
|
|
|
|
|
|
|-
|297
|region 5
|style="background:rgb(104,160,249)"|rgb(104,160,249)
|
|
|
|
|
|
|
|
|-
|298
|region 6
|style="background:rgb(221,108,158)"|rgb(221,108,158)
|
|
|
|
|
|
|
|
|-
|299
|region 7
|style="background:rgb(137,142,0)"|rgb(137,142,0)
|
|
|
|
|
|
|
|
|-
|300
|region 8
|style="background:rgb(230,70,0)"|rgb(230,70,0)
|
|
|
|
|
|
|
|
|-
|301
|region 9
|style="background:rgb(0,147,0)"|rgb(0,147,0)
|
|
|
|
|
|
|
|
|-
|302
|region 10
|style="background:rgb(0,147,248)"|rgb(0,147,248)
|
|
|
|
|
|
|
|
|-
|303
|region 11
|style="background:rgb(231,0,206)"|rgb(231,0,206)
|
|
|
|
|
|
|
|
|-
|304
|region 12
|style="background:rgb(129,78,0)"|rgb(129,78,0)
|
|
|
|
|
|
|
|
|-
|305
|region 13
|style="background:rgb(0,116,0)"|rgb(0,116,0)
|
|
|
|
|
|
|
|
|-
|306
|region 14
|style="background:rgb(0,0,255)"|rgb(0,0,255)
|
|
|
|
|
|
|
|
|-
|307
|region 15
|style="background:rgb(157,0,0)"|rgb(157,0,0)
|
|
|
|
|
|
|
|
|-
|308
|unknown
|style="background:rgb(100,100,130)"|rgb(100,100,130)
|
|
|
|
|
|
|
|
|-
|309
|cyst
|style="background:rgb(205,205,100)"|rgb(205,205,100)
|
|
|
|
|
| (M-01000,SRT,"Morphologically Altered Structure")
| (M-3340A,SRT,"Cyst") - CID 7159
|
|-
|}

==New labels added==

{| class="wikitable sortable labelpage labelpagetable" border="1"
! integer_label
! text_label
! color
! notes
! anatomic region
! anatomic region modifier
! primary anatomic structure
! primary anatomic structure modifier
! segmented property category - CID 7150
! segmented property type
! segmented property type modifier
|-
| ??
|rectum
|style="background:rgb(0,0,0);color:white"|rgba(?,?,?,?)
|
|
|
|
|
| (M-01000,SRT,"Morphologically Altered Structure")
| (M-3340A,SRT,"Cyst") - CID 7159
|
|-
| ??
| left testis
|style="background:rgb(0,0,0);color:white"|rgba(?,?,?,?)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-94000,SRT,"Testis") - CID 7160
|
|-
| ??
| right testis
|style="background:rgb(0,0,0);color:white"|rgba(?,?,?,?)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-94000,SRT,"Testis") - CID 7160
|
|-
| ??
| cervix
|style="background:rgb(0,0,0);color:white"|rgba(?,?,?,?)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-83200,SRT,"Cervix") - CID 7160
|
|-
| ??
| diaphragm
|style="background:rgb(0,0,0);color:white"|rgba(?,?,?,?)
| DC: ? need left/right - probably not
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-D3400,SRT,"Diaphragm) - CID 7155
|
|-
| ??
| table
|style="background:rgb(0,0,0);color:white"|rgba(?,?,?,?)
| DC: cf. 9 - table detection is handled specifically by some systems
|
|
|
|
| (A-00004,SRT,"Physical Object")
| (A-17350,SRT,"Table") - CID 7158
|
|-
| ??
| clothing
|style="background:rgb(0,0,0);color:white"|rgba(?,?,?,?)
| cf. 9
|
|
|
|
| (A-00004,SRT,"Physical Object")
| (A-00916,SRT,"Clothing") - CID 7158
|
|-
|}

Segmentation objects allow to encode recommended display color in "Recommended Display CIELab Value" (0062,000D) attribute; these values are encoded in [http://en.wikipedia.org/wiki/Lab_color_space CIALab].

File:Umls terminologybrowser entirefrontallobe.png

2012-09-18T13:53:46Z

Dclunie:

Projects:QIN:3D Slicer Annotation Image Markup:Standard Terminology

2012-09-18T13:42:40Z

Dclunie: /* SNOMED */

This is a collection of relevant pieces from:
* http://medical.nema.org/Dicom/2011/11_03pu.pdf
* http://medical.nema.org/Dicom/2011/11_16pu.pdf

=Segmentation image module attributes=

Segmentation image module attributes must in particular include the following (PS 3.3-2011, p.989):

[[Image:PS3.3-SegmentationAttributes.png]]

[[Image:PS3.3-CodedEntryData.png]]

==Code sequence attributes==

[[Image:PS3.3-CodeSequenceAttributes.png]]

==General Anatomy Macro==

The General Anatomy Macro is defined as follows (PS 3.3-2011, p.96):

[[Image:PS3.3-GeneralAnatomyMacro.png]]

==Coding Scheme Designators==

[[Image:PS3.3-CodingSchemeDesignators1.png]]

[[Image:PS3.3-CodingSchemeDesignators2.png]]

NOTE: this table is incomplete, consult PS 3.16-2011 p.43.

=RadLex=
* General information: http://rsna.org/RadLex.aspx
* License: http://rsna.org/uploadedFiles/RSNA/Content/Informatics/radlex_public_license_version_1-0-1.pdf
* Example hierarchy of the term mapping from RadLex browser (liver: http://www.radlex.org/RID/RID13419):

[[Image:RadLex_RID13419.png]]

=SNOMED=

David Clunie in email communication Sept 17, 2012:
<pre>
[...] The [DICOM] agreement with SNOMED
is to allow any implementer to use the terms included in DICOM in their
implementations and products without fee; it is not just to be able to
include them in the text of the standard documents.

So, since Slicer would be using the concepts to include in a DICOM SEG
object, you do not need any additional agreement, nor any agreement with
SNOMED to distribute the source code (my PixelMed Java DICOM toolkit is
full of SNOMED codes, for example, and I neither have not need such an
additional agreement).
</pre>

Notes on choosing SNOMED concepts when fleshing out the table, esp. regarding
anatomy. Make sure that you choose "(body structure)" concepts for anatomy,
and that you pick the "entire ..." concept rather than "structure of" etc.,
and if the choice is not obvious, include about your choice so that these can
be flagged for special attention during review.

One way to find the right SNOMED code without using one of the terminology
browsers is just to download the text files from the UMLS (from
http://www.nlm.nih.gov/research/umls/licensedcontent/snomedctfiles.html). You
will need to register and get a user name and password.

Then you can use grep as follows:

<pre>
% grep -i 'frontal lobe' sct1_Concepts_Core_INT_20110131.txt | grep -i structure | grep -i entire
180920004 0 Entire frontal lobe (body structure) 7N000 T-A2218 1
279169003 0 Entire frontal lobe gyrus (body structure) Xa10B T-A2207 1
314141005 0 Entire right frontal lobe (body structure) XaEYz T-A2213 0
314142003 0 Entire left frontal lobe (body structure) XaEZ0 T-A2214 0
362330001 0 Entire cortex of frontal lobe (body structure) XU96w T-A2211 1
362331002 0 Entire white matter of frontal lobe (body structure) XU96y T-A2221 1
</pre>

=Mapping Slicer GeneralAnatomy LUT to Standard Terminology (work in progress)=
Original GeneralAnatomy LUT see here: http://www.slicer.org/slicerWiki/index.php/Slicer3:2010_GenericAnatomyColors

==Original labels categorized==

{| class="wikitable sortable labelpage labelpagetable" border="1"
! integer_label
! text_label
! color
! notes
! anatomic region
! anatomic region modifier
! primary anatomic structure
! primary anatomic structure modifier
! segmented property category - CID 7150
! segmented property type
! segmented property type modifier
|-
|0
|background
|style="background:rgb(0,0,0);color:white"|rgba(0,0,0,0)
|
|
|
|
|
|
|
|
|-
|1
|tissue
|style="background:rgb(128,174,128)"|rgb(128,174,128)
| Default label for bodily tissues
|
|
|
|
| (T-D0050,SRT,"Tissue")
|
|
|-
|2
|bone
|style="background:rgb(241,214,145)"|rgb(241,214,145)
|
|
|
|
|
| (T-D0050,SRT,"Tissue")
| (T-D016E,SRT,"Bone")
|
|-
|3
|skin
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|4
|connective tissue
|style="background:rgb(111,184,210)"|rgb(111,184,210)
|
|
|
|
|
|
|
|
|-
|5
|blood
|style="background:rgb(216,101,79)"|rgb(216,101,79)
|
|
|
|
|
|
|
|
|-
|6
|organ
|style="background:rgb(221,130,101)"|rgb(221,130,101)
|
|
|
|
|
|
|
|
|-
|7
|mass
|style="background:rgb(144,238,144)"|rgb(144,238,144)
| Could be tumor or other lesion
|
|
|
|
| (M-01000,SRT,"Morphologically Altered Structure")
| (M-03000,SRT,"Mass") - CID 7159++
|
|-
|8
|muscle
|style="background:rgb(192,104,88)"|rgb(192,104,88)
|
|
|
|
|
| (T-D0050,SRT,"Tissue")
| (T-13001,SRT,"Muscle") - CID 7160 (should refactor)
|
|-
|9
|foreign object
|style="background:rgb(220,245,20)"|rgb(220,245,20)
| Implants, surical instruments, table...
|
|
|
|
| (A-00004,SRT,"Physical Object")
| (M-30400,SRT,"Foreign Body")
|
|-
|10
|waste
|style="background:rgb(78,63,0)"|rgb(78,63,0)
|
|
|
|
|
|
|
|
|-
|11
|teeth
|style="background:rgb(255,250,220)"|rgb(255,250,220)
|
|
|
|
|
|
|
|
|-
|12
|fat
|style="background:rgb(230,220,70)"|rgb(230,220,70)
|
|
|
|
|
|
|
|
|-
|13
|gray matter
|style="background:rgb(200,200,235)"|rgb(200,200,235)
| cf. 39 and 116
|
|
|
|
| (T-D0050,SRT,"Tissue")
| (T-A0096,SRT,"Gray Matter") - CID 7153 Edited
|
|-
|14
|white matter
|style="background:rgb(250,250,210)"|rgb(250,250,210)
|
|
|
|
|
| (T-D0050,SRT,"Tissue")
| (T-A0095,SRT,"White Matter") - CID 7153 Edited
|
|-
|15
|nerve
|style="background:rgb(244,214,49)"|rgb(244,214,49)
|
|
|
|
|
|
|
|
|-
|16
|vein
|style="background:rgb(0,151,206)"|rgb(0,151,206)
|
|
|
|
|
|
|
|
|-
|17
|artery
|style="background:rgb(216,101,79)"|rgb(216,101,79)
|
|
|
|
|
|
|
|
|-
|18
|capillary
|style="background:rgb(183,156,220)"|rgb(183,156,220)
|
|
|
|
|
|
|
|
|-
|19
|ligament
|style="background:rgb(183,214,211)"|rgb(183,214,211)
|
|
|
|
|
|
|
|
|-
|20
|tendon
|style="background:rgb(152,189,207)"|rgb(152,189,207)
|
|
|
|
|
|
|
|
|-
|21
|cartilage
|style="background:rgb(111,184,210)"|rgb(111,184,210)
|
|
|
|
|
|
|
|
|-
|22
|meniscus
|style="background:rgb(178,212,242)"|rgb(178,212,242)
|
|
|
|
|
|
|
|
|-
|23
|lymph node
|style="background:rgb(68,172,100)"|rgb(68,172,100)
|
|
|
|
|
|
|
|
|-
|24
|lymphatic vessel
|style="background:rgb(111,197,131)"|rgb(111,197,131)
|
|
|
|
|
|
|
|
|-
|25
|cerebro-spinal fluid
|style="background:rgb(85,188,255)"|rgb(85,188,255)
| cf. 106
|
|
|
|
| (T-D0050,SRT,"Tissue")
| (T-A1000,SRT,"Cerebrospinal Fluid") - CID 7153
|
|-
|26
|bile
|style="background:rgb(0,145,30)"|rgb(0,145,30)
|
|
|
|
|
|
|
|
|-
|27
|urine
|style="background:rgb(214,230,130)"|rgb(214,230,130)
|
|
|
|
|
|
|
|
|-
|28
|feces
|style="background:rgb(78,63,0)"|rgb(78,63,0)
|
|
|
|
|
|
|
|
|-
|29
|gas
|style="background:rgb(218,255,255)"|rgb(218,255,255)
|
|
|
|
|
|
|
|
|-
|30
|fluid
|style="background:rgb(170,250,250)"|rgb(170,250,250)
|
|
|
|
|
|
|
|
|-
|31
|edema
|style="background:rgb(140,224,228)"|rgb(140,224,228)
|
|
|
|
|
| (M-01000,SRT,"Morphologically Altered Structure")
| (M-36300,SRT,"Edema") - CID 7159++
|
|-
|32
|bleeding
|style="background:rgb(188,65,28)"|rgb(188,65,28)
|
|
|
|
|
| (M-01000,SRT,"Morphologically Altered Structure")
| (M-37000,SRT,"Hemorrhage") - CID 7159++
|
|-
|33
|necrosis
|style="background:rgb(216,191,216)"|rgb(216,191,216)
|
|
|
|
|
| (M-01000,SRT,"Morphologically Altered Structure")
| (M-54000,SRT,"Necrosis") - CID 7159
|
|-
|34
|clot
|style="background:rgb(145,60,66)"|rgb(145,60,66)
|
|
|
|
|
| (M-01000,SRT,"Morphologically Altered Structure")
| (M-35000,SRT,"Blood Clot") - CID 7159++
|
|-
|35
|embolism
|style="background:rgb(150,98,83)"|rgb(150,98,83)
|
|
|
|
|
| (M-01000,SRT,"Morphologically Altered Structure")
| (M-35300,SRT,"Embolus") - CID 7159++
|
|-
|36
|head
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|37
|central nervous system
|style="background:rgb(244,214,49)"|rgb(244,214,49)
|
|
|
|
|
|
|
|
|-
|38
|brain
|style="background:rgb(250,250,225)"|rgb(250,250,225)
|
|
|
|
|
| ? tissue or structure
| (T-A0100,SRT,"Brain") - CID 7153++
|
|-
|39
|gray matter of brain
|style="background:rgb(200,200,215)"|rgb(200,200,215)
| cf. 13 and 116
|
|
|
|
| (T-D0050,SRT,"Tissue")
| (T-A2020,SRT,"Cerebral Gray Matter") - CID 7153 Edited
|
|-
|40
|telencephalon
|style="background:rgb(68,131,98)"|rgb(68,131,98)
|
|
|
|
|
|
|
|
|-
|41
|cerebral cortex
|style="background:rgb(128,174,128)"|rgb(128,174,128)
|
|
|
|
|
|
|
|
|-
|42
|right frontal lobe
|style="background:rgb(83,146,164)"|rgb(83,146,164)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A2218,SRT,"Frontal Lobe") - CID 7153++
| (G-A100,SRT,"Right")
|-
|43
|left frontal lobe
|style="background:rgb(83,146,164)"|rgb(83,146,164)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A2218,SRT,"Frontal Lobe") - CID 7153++
| (G-A101,SRT,"Left")
|-
|44
|right temporal lobe
|style="background:rgb(162,115,105)"|rgb(162,115,105)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A2513,SRT,"Temporal Lobe") - CID 7153++
| (G-A100,SRT,"Right")
|-
|45
|left temporal lobe
|style="background:rgb(162,115,105)"|rgb(162,115,105)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A2513,SRT,"Temporal Lobe") - CID 7153++
| (G-A101,SRT,"Left")
|-
|46
|right parietal lobe
|style="background:rgb(141,93,137)"|rgb(141,93,137)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A230F,SRT,"Parietal Lobe") - CID 7153++
| (G-A100,SRT,"Right")
|-
|47
|left parietal lobe
|style="background:rgb(141,93,137)"|rgb(141,93,137)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A230F,SRT,"Parietal Lobe") - CID 7153++
| (G-A101,SRT,"Left")
|-
|48
|right occipital lobe
|style="background:rgb(182,166,110)"|rgb(182,166,110)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A240F,SRT,"Occipital Lobe") - CID 7153++
| (G-A100,SRT,"Right")
|-
|49
|left occipital lobe
|style="background:rgb(182,166,110)"|rgb(182,166,110)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A240F,SRT,"Occipital Lobe") - CID 7153++
| (G-A101,SRT,"Left")
|-
|50
|right insular lobe
|style="background:rgb(188,135,166)"|rgb(188,135,166)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A2615,SRT,"Insula") - CID 7153++
| (G-A100,SRT,"Right")
|-
|51
|left insular lobe
|style="background:rgb(188,135,166)"|rgb(188,135,166)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A2615,SRT,"Insula") - CID 7153++
| (G-A101,SRT,"Left")
|-
|52
|right limbic lobe
|style="background:rgb(154,150,201)"|rgb(154,150,201)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A0036,SRT,"Limbic Lobe") - CID 7153++
| (G-A100,SRT,"Right")
|-
|53
|left limbic lobe
|style="background:rgb(154,150,201)"|rgb(154,150,201)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A0036,SRT,"Limbic Lobe") - CID 7153++
| (G-A101,SRT,"Left")
|-
|54
|right striatum
|style="background:rgb(177,140,190)"|rgb(177,140,190)
|
|
|
|
|
|
|
|
|-
|55
|left striatum
|style="background:rgb(177,140,190)"|rgb(177,140,190)
|
|
|
|
|
|
|
|
|-
|56
|right caudate nucleus
|style="background:rgb(30,111,85)"|rgb(30,111,85)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A3201,SRT,"Caudate Nucleus") - CID 7153++
| (G-A100,SRT,"Right")
|-
|57
|left caudate nucleus
|style="background:rgb(30,111,85)"|rgb(30,111,85)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A3201,SRT,"Caudate Nucleus") - CID 7153++
| (G-A101,SRT,"Left")
|-
|58
|right putamen
|style="background:rgb(210,157,166)"|rgb(210,157,166)
|
|
|
|
|
|
|
|
|-
|59
|left putamen
|style="background:rgb(210,157,166)"|rgb(210,157,166)
|
|
|
|
|
|
|
|
|-
|60
|right pallidum
|style="background:rgb(48,129,126)"|rgb(48,129,126)
|
|
|
|
|
|
|
|
|-
|61
|left pallidum
|style="background:rgb(48,129,126)"|rgb(48,129,126)
|
|
|
|
|
|
|
|
|-
|62
|right amygdaloid complex
|style="background:rgb(98,153,112)"|rgb(98,153,112)
|
|
|
|
|
|
|
|
|-
|63
|left amygdaloid complex
|style="background:rgb(98,153,112)"|rgb(98,153,112)
|
|
|
|
|
|
|
|
|-
|64
|diencephalon
|style="background:rgb(69,110,53)"|rgb(69,110,53)
|
|
|
|
|
|
|
|
|-
|65
|thalamus
|style="background:rgb(166,113,137)"|rgb(166,113,137)
|
|
|
|
|
|
|
|
|-
|66
|right thalamus
|style="background:rgb(122,101,38)"|rgb(122,101,38)
|
|
|
|
|
|
|
|
|-
|67
|left thalamus
|style="background:rgb(122,101,38)"|rgb(122,101,38)
|
|
|
|
|
|
|
|
|-
|68
|pineal gland
|style="background:rgb(253,135,192)"|rgb(253,135,192)
|
|
|
|
|
|
|
|
|-
|69
|midbrain
|style="background:rgb(145,92,109)"|rgb(145,92,109)
|
|
|
|
|
|
|
|
|-
|70
|substantia nigra
|style="background:rgb(46,101,131)"|rgb(46,101,131)
|
|
|
|
|
|
|
|
|-
|71
|right substantia nigra
|style="background:rgb(0,108,112)"|rgb(0,108,112)
|
|
|
|
|
|
|
|
|-
|72
|left substantia nigra
|style="background:rgb(0,108,112)"|rgb(0,108,112)
|
|
|
|
|
|
|
|
|-
|73
|cerebral white matter
|style="background:rgb(250,250,225)"|rgb(250,250,225)
|
|
|
|
|
|
|
|
|-
|74
|right superior longitudinal fasciculus
|style="background:rgb(127,150,88)"|rgb(127,150,88)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A2820,SRT,"Superior Longitudinal Fasciculus") - CID 7153++
| (G-A100,SRT,"Right")
|-
|75
|left superior longitudinal fasciculus
|style="background:rgb(127,150,88)"|rgb(127,150,88)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A2820,SRT,"Superior Longitudinal Fasciculus") - CID 7153++
| (G-A101,SRT,"Left")
|-
|76
|right inferior longitudinal fasciculus
|style="background:rgb(159,116,163)"|rgb(159,116,163)
|
|
|
|
|
|
|
|
|-
|77
|left inferior longitudinal fasciculus
|style="background:rgb(159,116,163)"|rgb(159,116,163)
|
|
|
|
|
|
|
|
|-
|78
|right arcuate fasciculus
|style="background:rgb(125,102,154)"|rgb(125,102,154)
| DC: SNOMED needs fixing - specifies arcuate as synonym (ratehr than part of) superior longitudinal fasciculus
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (276650,FMA,"Arcuate Fasciculus") - CID 7153++
| (G-A100,SRT,"Right")
|-
|79
|left arcuate fasciculus
|style="background:rgb(125,102,154)"|rgb(125,102,154)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (276650,FMA,"Arcuate Fasciculus") - CID 7153++
| (G-A101,SRT,"Left")
|-
|80
|right uncinate fasciculus
|style="background:rgb(106,174,155)"|rgb(106,174,155)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A2831,SRT,"Uncinate Fasciculus") - CID 7153++
| (G-A100,SRT,"Right")
|-
|81
|left uncinate fasciculus
|style="background:rgb(106,174,155)"|rgb(106,174,155)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A2831,SRT,"Uncinate Fasciculus") - CID 7153++
| (G-A101,SRT,"Left")
|-
|82
|right cingulum bundle
|style="background:rgb(154,146,83)"|rgb(154,146,83)
|
|
|
|
|
|
|
|
|-
|83
|left cingulum bundle
|style="background:rgb(154,146,83)"|rgb(154,146,83)
|
|
|
|
|
|
|
|
|-
|84
|projection fibers
|style="background:rgb(126,126,55)"|rgb(126,126,55)
|
|
|
|
|
|
|
|
|-
|85
|right corticospinal tract
|style="background:rgb(201,160,133)"|rgb(201,160,133)
|
|
|
|
|
|
|
|
|-
|86
|left corticospinal tract
|style="background:rgb(201,160,133)"|rgb(201,160,133)
|
|
|
|
|
|
|
|
|-
|87
|right optic radiation
|style="background:rgb(78,152,141)"|rgb(78,152,141)
|
|
|
|
|
|
|
|
|-
|88
|left optic radiation
|style="background:rgb(78,152,141)"|rgb(78,152,141)
|
|
|
|
|
|
|
|
|-
|89
|right medial lemniscus
|style="background:rgb(174,140,103)"|rgb(174,140,103)
|
|
|
|
|
|
|
|
|-
|90
|left medial lemniscus
|style="background:rgb(174,140,103)"|rgb(174,140,103)
|
|
|
|
|
|
|
|
|-
|91
|right superior cerebellar peduncle
|style="background:rgb(139,126,177)"|rgb(139,126,177)
|
|
|
|
|
|
|
|
|-
|92
|left superior cerebellar peduncle
|style="background:rgb(139,126,177)"|rgb(139,126,177)
|
|
|
|
|
|
|
|
|-
|93
|right middle cerebellar peduncle
|style="background:rgb(148,120,72)"|rgb(148,120,72)
|
|
|
|
|
|
|
|
|-
|94
|left middle cerebellar peduncle
|style="background:rgb(148,120,72)"|rgb(148,120,72)
|
|
|
|
|
|
|
|
|-
|95
|right inferior cerebellar peduncle
|style="background:rgb(186,135,135)"|rgb(186,135,135)
|
|
|
|
|
|
|
|
|-
|96
|left inferior cerebellar peduncle
|style="background:rgb(186,135,135)"|rgb(186,135,135)
|
|
|
|
|
|
|
|
|-
|97
|optic chiasm
|style="background:rgb(99,106,24)"|rgb(99,106,24)
|
|
|
|
|
|
|
|
|-
|98
|right optic tract
|style="background:rgb(156,171,108)"|rgb(156,171,108)
|
|
|
|
|
|
|
|
|-
|99
|left optic tract
|style="background:rgb(156,171,108)"|rgb(156,171,108)
|
|
|
|
|
|
|
|
|-
|100
|right fornix
|style="background:rgb(64,123,147)"|rgb(64,123,147)
|
|
|
|
|
|
|
|
|-
|101
|left fornix
|style="background:rgb(64,123,147)"|rgb(64,123,147)
|
|
|
|
|
|
|
|
|-
|102
|commissural fibers
|style="background:rgb(138,95,74)"|rgb(138,95,74)
|
|
|
|
|
|
|
|
|-
|103
|corpus callosum
|style="background:rgb(97,113,158)"|rgb(97,113,158)
|
|
|
|
|
|
|
|
|-
|104
|posterior commissure
|style="background:rgb(126,161,197)"|rgb(126,161,197)
|
|
|
|
|
|
|
|
|-
|105
|cerebellar white matter
|style="background:rgb(194,195,164)"|rgb(194,195,164)
|
|
|
|
|
|
| (T-A6080,SRT,"Cerebellar White Matter") - CID 7153++
|
|-
|106
|CSF space
|style="background:rgb(85,188,255)"|rgb(85,188,255)
| DC: cf. 25; is this one supposed to be brain-specific? assume so
|
|
|
|
|
| (T-A0109,SRT,"Brain Cerebrospinal Fluid Pathway") - CID 7153++
|
|-
|107
|ventricles of brain
|style="background:rgb(88,106,215)"|rgb(88,106,215)
|
|
|
|
|
|
|
|
|-
|108
|right lateral ventricle
|style="background:rgb(88,106,215)"|rgb(88,106,215)
|
|
|
|
|
|
|
|
|-
|109
|left lateral ventricle
|style="background:rgb(88,106,215)"|rgb(88,106,215)
|
|
|
|
|
|
|
|
|-
|110
|right third ventricle
|style="background:rgb(88,106,215)"|rgb(88,106,215)
|
|
|
|
|
|
|
|
|-
|111
|left third ventricle
|style="background:rgb(88,106,215)"|rgb(88,106,215)
|
|
|
|
|
|
|
|
|-
|112
|cerebral aqueduct
|style="background:rgb(88,106,215)"|rgb(88,106,215)
|
|
|
|
|
|
|
|
|-
|113
|fourth ventricle
|style="background:rgb(88,106,215)"|rgb(88,106,215)
|
|
|
|
|
|
|
|
|-
|114
|subarachnoid space
|style="background:rgb(88,106,215)"|rgb(88,106,215)
|
|
|
|
|
|
|
|
|-
|115
|spinal cord
|style="background:rgb(244,214,49)"|rgb(244,214,49)
|
|
|
|
|
|
|
|
|-
|116
|gray matter of spinal cord
|style="background:rgb(200,200,215)"|rgb(200,200,215)
| cf. 7 and 39
|
|
|
|
|
| (T-A7020,SRT,"Spinal Cord Gray Matter") - CID 7153++
|
|-
|117
|white matter of spinal cord
|style="background:rgb(250,250,225)"|rgb(250,250,225)
|
|
|
|
|
|
| (T-A7070,SRT,"Spinal Cord White Matter") - CID 7153++
|
|-
|118
|endocrine system of brain
|style="background:rgb(82,174,128)"|rgb(82,174,128)
|
|
|
|
|
|
|
|
|-
|119
|pituitary gland
|style="background:rgb(57,157,110)"|rgb(57,157,110)
|
|
|
|
|
|
|
|
|-
|120
|adenohypophysis
|style="background:rgb(60,143,83)"|rgb(60,143,83)
|
|
|
|
|
|
|
|
|-
|121
|neurohypophysis
|style="background:rgb(92,162,109)"|rgb(92,162,109)
|
|
|
|
|
|
|
|
|-
|122
|meninges
|style="background:rgb(255,244,209)"|rgb(255,244,209)
|
|
|
|
|
|
| (T-A1110,SRT,"Meninges") - CID 7153
|
|-
|123
|dura mater
|style="background:rgb(255,244,209)"|rgb(255,244,209)
|
|
|
|
|
|
|
|
|-
|124
|arachnoid
|style="background:rgb(255,244,209)"|rgb(255,244,209)
|
|
|
|
|
|
|
|
|-
|125
|pia mater
|style="background:rgb(255,244,209)"|rgb(255,244,209)
|
|
|
|
|
|
|
|
|-
|126
|muscles of head
|style="background:rgb(201,121,77)"|rgb(201,121,77)
|
|
|
|
|
|
|
|
|-
|127
|salivary glands
|style="background:rgb(70,163,117)"|rgb(70,163,117)
|
|
|
|
|
|
|
|
|-
|128
|lips
|style="background:rgb(188,91,95)"|rgb(188,91,95)
|
|
|
|
|
|
|
|
|-
|129
|nose
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|130
|tongue
|style="background:rgb(166,84,94)"|rgb(166,84,94)
|
|
|
|
|
|
|
|
|-
|131
|soft palate
|style="background:rgb(182,105,107)"|rgb(182,105,107)
|
|
|
|
|
|
|
|
|-
|132
|right inner ear
|style="background:rgb(229,147,118)"|rgb(229,147,118)
|
|
|
|
|
|
|
|
|-
|133
|left inner ear
|style="background:rgb(229,147,118)"|rgb(229,147,118)
|
|
|
|
|
|
|
|
|-
|134
|right external ear
|style="background:rgb(174,122,90)"|rgb(174,122,90)
|
|
|
|
|
|
|
|
|-
|135
|left external ear
|style="background:rgb(174,122,90)"|rgb(174,122,90)
|
|
|
|
|
|
|
|
|-
|136
|right middle ear
|style="background:rgb(201,112,73)"|rgb(201,112,73)
|
|
|
|
|
|
|
|
|-
|137
|left middle ear
|style="background:rgb(201,112,73)"|rgb(201,112,73)
|
|
|
|
|
|
|
|
|-
|138
|right eyeball
|style="background:rgb(194,142,0)"|rgb(194,142,0)
|
|
|
|
|
|
|
|
|-
|139
|left eyeball
|style="background:rgb(194,142,0)"|rgb(194,142,0)
|
|
|
|
|
|
|
|
|-
|140
|skull
|style="background:rgb(241,213,144)"|rgb(241,213,144)
|
|
|
|
|
|
| (T-11100,SRT,"Skull") - CID 7153
|
|-
|141
|right frontal bone
|style="background:rgb(203,179,77)"|rgb(203,179,77)
|
|
|
|
|
|
|
|
|-
|142
|left frontal bone
|style="background:rgb(203,179,77)"|rgb(203,179,77)
|
|
|
|
|
|
|
|
|-
|143
|right parietal bone
|style="background:rgb(229,204,109)"|rgb(229,204,109)
|
|
|
|
|
|
|
|
|-
|144
|left parietal bone
|style="background:rgb(229,204,109)"|rgb(229,204,109)
|
|
|
|
|
|
|
|
|-
|145
|right temporal bone
|style="background:rgb(255,243,152)"|rgb(255,243,152)
|
|
|
|
|
|
|
|
|-
|146
|left temporal bone
|style="background:rgb(255,243,152)"|rgb(255,243,152)
|
|
|
|
|
|
|
|
|-
|147
|right sphenoid bone
|style="background:rgb(209,185,85)"|rgb(209,185,85)
|
|
|
|
|
|
|
|
|-
|148
|left sphenoid bone
|style="background:rgb(209,185,85)"|rgb(209,185,85)
|
|
|
|
|
|
|
|
|-
|149
|right ethmoid bone
|style="background:rgb(248,223,131)"|rgb(248,223,131)
|
|
|
|
|
|
|
|
|-
|150
|left ethmoid bone
|style="background:rgb(248,223,131)"|rgb(248,223,131)
|
|
|
|
|
|
|
|
|-
|151
|occipital bone
|style="background:rgb(255,230,138)"|rgb(255,230,138)
|
|
|
|
|
|
|
|
|-
|152
|maxilla
|style="background:rgb(196,172,68)"|rgb(196,172,68)
|
|
|
|
|
|
|
|
|-
|153
|right zygomatic bone
|style="background:rgb(255,255,167)"|rgb(255,255,167)
| DC: ? use more general (T-111BE,SRT,"Zygoma"); also, where is the left one ??
| (T-11167,SRT,"Zygomatic arch") - CID 4028
| (G-A100,SRT,"Right")
|
|
|
|
|
|-
|154
|right lacrimal bone
|style="background:rgb(255,250,160)"|rgb(255,250,160)
|
|
|
|
|
|
|
|
|-
|155
|vomer bone
|style="background:rgb(255,237,145)"|rgb(255,237,145)
|
|
|
|
|
|
|
|
|-
|156
|right palatine bone
|style="background:rgb(242,217,123)"|rgb(242,217,123)
|
| (T-111A8,SRT,"Palatine Bone")
| (G-A100,SRT,"Right")
|
|
|
|
|
|-
|157
|left palatine bone
|style="background:rgb(242,217,123)"|rgb(242,217,123)
|
| (T-111A8,SRT,"Palatine Bone")
| (G-A101,SRT,"Left")
|
|
|
|
|
|-
|158
|mandible
|style="background:rgb(222,198,101)"|rgb(222,198,101)
|
|
|
|
|
|
|
|
|-
|159
|neck
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|160
|muscles of neck
|style="background:rgb(213,124,109)"|rgb(213,124,109)
|
|
|
|
|
|
|
|
|-
|161
|pharynx
|style="background:rgb(184,105,108)"|rgb(184,105,108)
|
|
|
|
|
|
|
|
|-
|162
|larynx
|style="background:rgb(150,208,243)"|rgb(150,208,243)
|
|
|
|
|
|
|
|
|-
|163
|thyroid gland
|style="background:rgb(62,162,114)"|rgb(62,162,114)
|
|
|
|
|
|
|
|
|-
|164
|right parathyroid glands
|style="background:rgb(62,162,114)"|rgb(62,162,114)
|
|
|
|
|
|
|
|
|-
|165
|left parathyroid glands
|style="background:rgb(62,162,114)"|rgb(62,162,114)
|
|
|
|
|
|
|
|
|-
|166
|skeleton of neck
|style="background:rgb(242,206,142)"|rgb(242,206,142)
|
|
|
|
|
|
|
|
|-
|167
|hyoid bone
|style="background:rgb(250,210,139)"|rgb(250,210,139)
|
|
|
|
|
|
|
|
|-
|168
|cervical vertebral column
|style="background:rgb(255,255,207)"|rgb(255,255,207)
|
|
|
|
|
|
|
|
|-
|169
|thorax
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|170
|trachea
|style="background:rgb(182,228,255)"|rgb(182,228,255)
|
|
|
|
|
|
|
|
|-
|171
|bronchi
|style="background:rgb(175,216,244)"|rgb(175,216,244)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-26000,SRT,"Bronchi") - CID 7155
|
|-
|172
|right lung
|style="background:rgb(197,165,145)"|rgb(197,165,145)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-28000,SRT,"Lung") - CID 7155
| (G-A100,SRT,"Right")
|-
|173
|left lung
|style="background:rgb(197,165,145)"|rgb(197,165,145)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-28000,SRT,"Lung") - CID 7155
| (G-A101,SRT,"Left")
|-
|174
|superior lobe of right lung
|style="background:rgb(172,138,115)"|rgb(172,138,115)
|
|
|
|
|
|
|
|
|-
|175
|superior lobe of left lung
|style="background:rgb(172,138,115)"|rgb(172,138,115)
|
|
|
|
|
|
|
|
|-
|176
|middle lobe of right lung
|style="background:rgb(202,164,140)"|rgb(202,164,140)
|
|
|
|
|
|
|
|
|-
|177
|inferior lobe of right lung
|style="background:rgb(224,186,162)"|rgb(224,186,162)
|
|
|
|
|
|
|
|
|-
|178
|inferior lobe of left lung
|style="background:rgb(224,186,162)"|rgb(224,186,162)
|
|
|
|
|
|
|
|
|-
|179
|pleura
|style="background:rgb(255,245,217)"|rgb(255,245,217)
|
|
|
|
|
|
|
|
|-
|180
|heart
|style="background:rgb(206,110,84)"|rgb(206,110,84)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-32000,SRT,"Heart") - CID 7152
|
|-
|181
|right atrium
|style="background:rgb(210,115,89)"|rgb(210,115,89)
|
|
|
|
|
|
|
|
|-
|182
|left atrium
|style="background:rgb(203,108,81)"|rgb(203,108,81)
|
|
|
|
|
|
|
|
|-
|183
|atrial septum
|style="background:rgb(233,138,112)"|rgb(233,138,112)
|
|
|
|
|
|
|
|
|-
|184
|ventricular septum
|style="background:rgb(195,100,73)"|rgb(195,100,73)
|
|
|
|
|
|
|
|
|-
|185
|right ventricle of heart
|style="background:rgb(181,85,57)"|rgb(181,85,57)
| DC: SRT code is precordinated; no need for laterality modifier
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-32500,SRT,"Right Ventricle") - CID 7152
|
|-
|186
|left ventricle of heart
|style="background:rgb(152,55,13)"|rgb(152,55,13)
| DC: SRT code is precordinated; no need for laterality modifier
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-32600,SRT,"Left Ventricle") - CID 7152
|
|-
|187
|mitral valve
|style="background:rgb(159,63,27)"|rgb(159,63,27)
|
|
|
|
|
|
|
|
|-
|188
|tricuspid valve
|style="background:rgb(166,70,38)"|rgb(166,70,38)
|
|
|
|
|
|
|
|
|-
|189
|aortic valve
|style="background:rgb(218,123,97)"|rgb(218,123,97)
|
|
|
|
|
|
|
|
|-
|190
|pulmonary valve
|style="background:rgb(225,130,104)"|rgb(225,130,104)
|
|
|
|
|
|
|
|
|-
|191
|aorta
|style="background:rgb(224,97,76)"|rgb(224,97,76)
| DC: ? need specific parts (ascending, arch, descending thoracic, abdominal)
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-42000,SRT,"Aorta") - CID 7152
|
|-
|192
|pericardium
|style="background:rgb(255,244,209)"|rgb(255,244,209)
|
|
|
|
|
|
|
|
|-
|193
|pericardial cavity
|style="background:rgb(184,122,154)"|rgb(184,122,154)
|
|
|
|
|
|
|
|
|-
|194
|esophagus
|style="background:rgb(211,171,143)"|rgb(211,171,143)
|
|
|
|
|
|
|
|
|-
|195
|thymus
|style="background:rgb(47,150,103)"|rgb(47,150,103)
|
|
|
|
|
|
|
|
|-
|196
|mediastinum
|style="background:rgb(255,244,209)"|rgb(255,244,209)
|
|
|
|
|
|
|
|
|-
|197
|skin of thoracic wall
|style="background:rgb(173,121,88)"|rgb(173,121,88)
|
|
|
|
|
|
|
|
|-
|198
|muscles of thoracic wall
|style="background:rgb(188,95,76)"|rgb(188,95,76)
|
|
|
|
|
|
|
|
|-
|199
|skeleton of thorax
|style="background:rgb(255,239,172)"|rgb(255,239,172)
|
|
|
|
|
|
|
|
|-
|200
|thoracic vertebral column
|style="background:rgb(226,202,134)"|rgb(226,202,134)
|
|
|
|
|
|
|
|
|-
|201
|ribs
|style="background:rgb(253,232,158)"|rgb(253,232,158)
|
|
|
|
|
|
|
|
|-
|202
|sternum
|style="background:rgb(244,217,154)"|rgb(244,217,154)
|
|
|
|
|
|
|
|
|-
|203
|right clavicle
|style="background:rgb(205,179,108)"|rgb(205,179,108)
|
|
|
|
|
|
|
|
|-
|204
|left clavicle
|style="background:rgb(205,179,108)"|rgb(205,179,108)
|
|
|
|
|
|
|
|
|-
|205
|abdominal cavity
|style="background:rgb(186,124,161)"|rgb(186,124,161)
|
|
|
|
|
|
|
|
|-
|206
|abdomen
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|207
|peritoneum
|style="background:rgb(255,255,220)"|rgb(255,255,220)
|
|
|
|
|
|
|
|
|-
|208
|omentum
|style="background:rgb(234,234,194)"|rgb(234,234,194)
|
|
|
|
|
|
|
|
|-
|209
|peritoneal cavity
|style="background:rgb(204,142,178)"|rgb(204,142,178)
|
|
|
|
|
|
|
|
|-
|210
|retroperitoneal space
|style="background:rgb(180,119,153)"|rgb(180,119,153)
|
|
|
|
|
|
|
|
|-
|211
|stomach
|style="background:rgb(216,132,105)"|rgb(216,132,105)
|
|
|
|
|
|
|
|
|-
|212
|duodenum
|style="background:rgb(255,253,229)"|rgb(255,253,229)
|
|
|
|
|
|
|
|
|-
|213
|small bowel
|style="background:rgb(205,167,142)"|rgb(205,167,142)
|
|
|
|
|
|
|
|
|-
|214
|colon
|style="background:rgb(204,168,143)"|rgb(204,168,143)
|
|
|
|
|
|
|
|
|-
|215
|anus
|style="background:rgb(255,224,199)"|rgb(255,224,199)
|
|
|
|
|
|
|
|
|-
|216
|liver
|style="background:rgb(221,130,101)"|rgb(221,130,101)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-62000,SRT,"Liver") - CID 7154
|
|-
|217
|biliary tree
|style="background:rgb(0,145,30)"|rgb(0,145,30)
|
|
|
|
|
|
|
|
|-
|218
|gallbladder
|style="background:rgb(139,150,98)"|rgb(139,150,98)
|
|
|
|
|
|
|
|
|-
|219
|pancreas
|style="background:rgb(249,180,111)"|rgb(249,180,111)
|
|
|
|
|
|
|
|
|-
|220
|spleen
|style="background:rgb(157,108,162)"|rgb(157,108,162)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-C3000,SRT,"Spleen) - CID 7154
|
|-
|221
|urinary system
|style="background:rgb(203,136,116)"|rgb(203,136,116)
|
|
|
|
|
|
|
|
|-
|222
|right kidney
|style="background:rgb(185,102,83)"|rgb(185,102,83)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-71000,SRT,"Kidney") - CID 7154
| (G-A100,SRT,"Right")
|-
|223
|left kidney
|style="background:rgb(185,102,83)"|rgb(185,102,83)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-71000,SRT,"Kidney") - CID 7154
| (G-A101,SRT,"Left")
|-
|224
|right ureter
|style="background:rgb(247,182,164)"|rgb(247,182,164)
|
|
|
|
|
|
|
|
|-
|225
|left ureter
|style="background:rgb(247,182,164)"|rgb(247,182,164)
|
|
|
|
|
|
|
|
|-
|226
|urinary bladder
|style="background:rgb(222,154,132)"|rgb(222,154,132)
|
|
|
|
|
|
|
|
|-
|227
|urethra
|style="background:rgb(124,186,223)"|rgb(124,186,223)
|
|
|
|
|
|
|
|
|-
|228
|right adrenal gland
|style="background:rgb(249,186,150)"|rgb(249,186,150)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-B3000,SRT,"Adrenal Gland")
| (G-A100,SRT,"Right")
|-
|229
|left adrenal gland
|style="background:rgb(249,186,150)"|rgb(249,186,150)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-B3000,SRT,"Adrenal Gland")
| (G-A101,SRT,"Left")
|-
|230
|female internal genitalia
|style="background:rgb(244,170,147)"|rgb(244,170,147)
|
|
|
|
|
|
|
|
|-
|231
|uterus
|style="background:rgb(255,181,158)"|rgb(255,181,158)
|
|
|
|
|
|
|
|
|-
|232
|right fallopian tube
|style="background:rgb(255,190,165)"|rgb(255,190,165)
|
|
|
|
|
|
|
|
|-
|233
|left fallopian tube
|style="background:rgb(227,153,130)"|rgb(227,153,130)
|
|
|
|
|
|
|
|
|-
|234
|right ovary
|style="background:rgb(213,141,113)"|rgb(213,141,113)
|
|
|
|
|
|
|
|
|-
|235
|left ovary
|style="background:rgb(213,141,113)"|rgb(213,141,113)
|
|
|
|
|
|
|
|
|-
|236
|vagina
|style="background:rgb(193,123,103)"|rgb(193,123,103)
|
|
|
|
|
|
|
|
|-
|237
|male internal genitalia
|style="background:rgb(216,146,127)"|rgb(216,146,127)
|
|
|
|
|
|
|
|
|-
|238
|prostate
|style="background:rgb(230,158,140)"|rgb(230,158,140)
|
|
|
|
|
|
|
|
|-
|239
|right seminal vesicle
|style="background:rgb(245,172,147)"|rgb(245,172,147)
|
|
|
|
|
|
|
|
|-
|240
|left seminal vesicle
|style="background:rgb(245,172,147)"|rgb(245,172,147)
|
|
|
|
|
|
|
|
|-
|241
|right deferent duct
|style="background:rgb(241,172,151)"|rgb(241,172,151)
|
|
|
|
|
|
|
|
|-
|242
|left deferent duct
|style="background:rgb(241,172,151)"|rgb(241,172,151)
|
|
|
|
|
|
|
|
|-
|243
|skin of abdominal wall
|style="background:rgb(177,124,92)"|rgb(177,124,92)
|
|
|
|
|
|
|
|
|-
|244
|muscles of abdominal wall
|style="background:rgb(171,85,68)"|rgb(171,85,68)
|
|
|
|
|
|
|
|
|-
|245
|skeleton of abdomen
|style="background:rgb(217,198,131)"|rgb(217,198,131)
|
|
|
|
|
|
|
|
|-
|246
|lumbar vertebral column
|style="background:rgb(212,188,102)"|rgb(212,188,102)
|
|
|
|
|
|
|
|
|-
|247
|female external genitalia
|style="background:rgb(185,135,134)"|rgb(185,135,134)
|
|
|
|
|
|
|
|
|-
|248
|male external genitalia
|style="background:rgb(185,135,134)"|rgb(185,135,134)
|
|
|
|
|
|
|
|
|-
|249
|skeleton of upper limb
|style="background:rgb(198,175,125)"|rgb(198,175,125)
|
|
|
|
|
|
|
|
|-
|250
|muscles of upper limb
|style="background:rgb(194,98,79)"|rgb(194,98,79)
|
|
|
|
|
|
|
|
|-
|251
|right upper limb
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|252
|left upper limb
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|253
|right shoulder
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|254
|left shoulder
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|255
|right arm
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|256
|left arm
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|257
|right elbow
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|258
|left elbow
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|259
|right forearm
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|260
|left forearm
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|261
|right wrist
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|262
|left wrist
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|263
|right hand
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|264
|left hand
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|265
|skeleton of lower limb
|style="background:rgb(255,238,170)"|rgb(255,238,170)
|
|
|
|
|
|
|
|
|-
|266
|muscles of lower limb
|style="background:rgb(206,111,93)"|rgb(206,111,93)
|
|
|
|
|
|
|
|
|-
|267
|right lower limb
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|268
|left lower limb
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|269
|right hip
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|270
|left hip
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|271
|right thigh
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|272
|left thigh
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|273
|right knee
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|274
|left knee
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|275
|right leg
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|276
|left leg
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|277
|right foot
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|278
|left foot
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|279
|peripheral nervous system
|style="background:rgb(216,186,0)"|rgb(216,186,0)
|
|
|
|
|
|
|
|
|-
|280
|autonomic nerve
|style="background:rgb(255,226,77)"|rgb(255,226,77)
|
|
|
|
|
|
|
|
|-
|281
|sympathetic trunk
|style="background:rgb(255,243,106)"|rgb(255,243,106)
|
|
|
|
|
|
|
|
|-
|282
|cranial nerves
|style="background:rgb(255,234,92)"|rgb(255,234,92)
|
|
|
|
|
|
|
|
|-
|283
|vagus nerve
|style="background:rgb(240,210,35)"|rgb(240,210,35)
|
|
|
|
|
|
|
|
|-
|284
|peripheral nerve
|style="background:rgb(224,194,0)"|rgb(224,194,0)
|
|
|
|
|
|
|
|
|-
|285
|circulatory system
|style="background:rgb(213,99,79)"|rgb(213,99,79)
|
|
|
|
|
|
|
|
|-
|286
|systemic arterial system
|style="background:rgb(217,102,81)"|rgb(217,102,81)
|
|
|
|
|
|
|
|
|-
|287
|systemic venous system
|style="background:rgb(0,147,202)"|rgb(0,147,202)
|
|
|
|
|
|
|
|
|-
|288
|pulmonary arterial system
|style="background:rgb(0,122,171)"|rgb(0,122,171)
|
|
|
|
|
|
|
|
|-
|289
|pulmonary venous system
|style="background:rgb(186,77,64)"|rgb(186,77,64)
|
|
|
|
|
|
|
|
|-
|290
|lymphatic system
|style="background:rgb(111,197,131)"|rgb(111,197,131)
|
|
|
|
|
|
|
|
|-
|291
|needle
|style="background:rgb(240,255,30)"|rgb(240,255,30)
|
|
|
|
|
| (A-00004,SRT,"Physical Object")
| (A-30360,SRT,"Needle") - CID 7157++
|
|-
|292
|region 0
|style="background:rgb(185,232,61)"|rgb(185,232,61)
|
|
|
|
|
|
|
|
|-
|293
|region 1
|style="background:rgb(0,226,255)"|rgb(0,226,255)
|
|
|
|
|
|
|
|
|-
|294
|region 2
|style="background:rgb(251,159,255)"|rgb(251,159,255)
|
|
|
|
|
|
|
|
|-
|295
|region 3
|style="background:rgb(230,169,29)"|rgb(230,169,29)
|
|
|
|
|
|
|
|
|-
|296
|region 4
|style="background:rgb(0,194,113)"|rgb(0,194,113)
|
|
|
|
|
|
|
|
|-
|297
|region 5
|style="background:rgb(104,160,249)"|rgb(104,160,249)
|
|
|
|
|
|
|
|
|-
|298
|region 6
|style="background:rgb(221,108,158)"|rgb(221,108,158)
|
|
|
|
|
|
|
|
|-
|299
|region 7
|style="background:rgb(137,142,0)"|rgb(137,142,0)
|
|
|
|
|
|
|
|
|-
|300
|region 8
|style="background:rgb(230,70,0)"|rgb(230,70,0)
|
|
|
|
|
|
|
|
|-
|301
|region 9
|style="background:rgb(0,147,0)"|rgb(0,147,0)
|
|
|
|
|
|
|
|
|-
|302
|region 10
|style="background:rgb(0,147,248)"|rgb(0,147,248)
|
|
|
|
|
|
|
|
|-
|303
|region 11
|style="background:rgb(231,0,206)"|rgb(231,0,206)
|
|
|
|
|
|
|
|
|-
|304
|region 12
|style="background:rgb(129,78,0)"|rgb(129,78,0)
|
|
|
|
|
|
|
|
|-
|305
|region 13
|style="background:rgb(0,116,0)"|rgb(0,116,0)
|
|
|
|
|
|
|
|
|-
|306
|region 14
|style="background:rgb(0,0,255)"|rgb(0,0,255)
|
|
|
|
|
|
|
|
|-
|307
|region 15
|style="background:rgb(157,0,0)"|rgb(157,0,0)
|
|
|
|
|
|
|
|
|-
|308
|unknown
|style="background:rgb(100,100,130)"|rgb(100,100,130)
|
|
|
|
|
|
|
|
|-
|309
|cyst
|style="background:rgb(205,205,100)"|rgb(205,205,100)
|
|
|
|
|
| (M-01000,SRT,"Morphologically Altered Structure")
| (M-3340A,SRT,"Cyst") - CID 7159
|
|-
|}

==New labels added==

{| class="wikitable sortable labelpage labelpagetable" border="1"
! integer_label
! text_label
! color
! notes
! anatomic region
! anatomic region modifier
! primary anatomic structure
! primary anatomic structure modifier
! segmented property category - CID 7150
! segmented property type
! segmented property type modifier
|-
| ??
|rectum
|style="background:rgb(0,0,0);color:white"|rgba(?,?,?,?)
|
|
|
|
|
| (M-01000,SRT,"Morphologically Altered Structure")
| (M-3340A,SRT,"Cyst") - CID 7159
|
|-
| ??
| left testis
|style="background:rgb(0,0,0);color:white"|rgba(?,?,?,?)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-94000,SRT,"Testis") - CID 7160
|
|-
| ??
| right testis
|style="background:rgb(0,0,0);color:white"|rgba(?,?,?,?)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-94000,SRT,"Testis") - CID 7160
|
|-
| ??
| cervix
|style="background:rgb(0,0,0);color:white"|rgba(?,?,?,?)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-83200,SRT,"Cervix") - CID 7160
|
|-
| ??
| diaphragm
|style="background:rgb(0,0,0);color:white"|rgba(?,?,?,?)
| DC: ? need left/right - probably not
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-D3400,SRT,"Diaphragm) - CID 7155
|
|-
| ??
| table
|style="background:rgb(0,0,0);color:white"|rgba(?,?,?,?)
| DC: cf. 9 - table detection is handled specifically by some systems
|
|
|
|
| (A-00004,SRT,"Physical Object")
| (A-17350,SRT,"Table") - CID 7158
|
|-
| ??
| clothing
|style="background:rgb(0,0,0);color:white"|rgba(?,?,?,?)
| cf. 9
|
|
|
|
| (A-00004,SRT,"Physical Object")
| (A-00916,SRT,"Clothing") - CID 7158
|
|-
|}

Segmentation objects allow to encode recommended display color in "Recommended Display CIELab Value" (0062,000D) attribute; these values are encoded in [http://en.wikipedia.org/wiki/Lab_color_space CIALab].

Projects:QIN:3D Slicer Annotation Image Markup:Standard Terminology

2012-09-18T13:32:37Z

Dclunie: /* SNOMED */

This is a collection of relevant pieces from:
* http://medical.nema.org/Dicom/2011/11_03pu.pdf
* http://medical.nema.org/Dicom/2011/11_16pu.pdf

=Segmentation image module attributes=

Segmentation image module attributes must in particular include the following (PS 3.3-2011, p.989):

[[Image:PS3.3-SegmentationAttributes.png]]

[[Image:PS3.3-CodedEntryData.png]]

==Code sequence attributes==

[[Image:PS3.3-CodeSequenceAttributes.png]]

==General Anatomy Macro==

The General Anatomy Macro is defined as follows (PS 3.3-2011, p.96):

[[Image:PS3.3-GeneralAnatomyMacro.png]]

==Coding Scheme Designators==

[[Image:PS3.3-CodingSchemeDesignators1.png]]

[[Image:PS3.3-CodingSchemeDesignators2.png]]

NOTE: this table is incomplete, consult PS 3.16-2011 p.43.

=RadLex=
* General information: http://rsna.org/RadLex.aspx
* License: http://rsna.org/uploadedFiles/RSNA/Content/Informatics/radlex_public_license_version_1-0-1.pdf
* Example hierarchy of the term mapping from RadLex browser (liver: http://www.radlex.org/RID/RID13419):

[[Image:RadLex_RID13419.png]]

=SNOMED=

David Clunie in email communication Sept 17, 2012:
<pre>
[...] The [DICOM] agreement with SNOMED
is to allow any implementer to use the terms included in DICOM in their
implementations and products without fee; it is not just to be able to
include them in the text of the standard documents.

So, since Slicer would be using the concepts to include in a DICOM SEG
object, you do not need any additional agreement, nor any agreement with
SNOMED to distribute the source code (my PixelMed Java DICOM toolkit is
full of SNOMED codes, for example, and I neither have not need such an
additional agreement).
</pre>

Notes on choosing SNOMED concepts when fleshing out the table, esp. regarding
anatomy. Make sure that you choose "(body structure)" concepts for anatomy,
and that you pick the "entire ..." concept rather than "structure of" etc.,
and if the choice is not obvious, include about your choice so that these can
be flagged for special attention during review.

One way to find the right SNOMED code without using one of the terminology
browser is just to download the text files from the UMLS (from
http://www.nlm.nih.gov/research/umls/licensedcontent/snomedctfiles.html). You
will need to register and get a user name and password.

Then you can use grep as follows:

<pre>
% grep -i 'frontal lobe' sct1_Concepts_Core_INT_20110131.txt | grep -i structure | grep -i entire
180920004 0 Entire frontal lobe (body structure) 7N000 T-A2218 1
279169003 0 Entire frontal lobe gyrus (body structure) Xa10B T-A2207 1
314141005 0 Entire right frontal lobe (body structure) XaEYz T-A2213 0
314142003 0 Entire left frontal lobe (body structure) XaEZ0 T-A2214 0
362330001 0 Entire cortex of frontal lobe (body structure) XU96w T-A2211 1
362331002 0 Entire white matter of frontal lobe (body structure) XU96y T-A2221 1
</pre>

=Mapping Slicer GeneralAnatomy LUT to Standard Terminology (work in progress)=
Original GeneralAnatomy LUT see here: http://www.slicer.org/slicerWiki/index.php/Slicer3:2010_GenericAnatomyColors

==Original labels categorized==

{| class="wikitable sortable labelpage labelpagetable" border="1"
! integer_label
! text_label
! color
! notes
! anatomic region
! anatomic region modifier
! primary anatomic structure
! primary anatomic structure modifier
! segmented property category - CID 7150
! segmented property type
! segmented property type modifier
|-
|0
|background
|style="background:rgb(0,0,0);color:white"|rgba(0,0,0,0)
|
|
|
|
|
|
|
|
|-
|1
|tissue
|style="background:rgb(128,174,128)"|rgb(128,174,128)
| Default label for bodily tissues
|
|
|
|
| (T-D0050,SRT,"Tissue")
|
|
|-
|2
|bone
|style="background:rgb(241,214,145)"|rgb(241,214,145)
|
|
|
|
|
| (T-D0050,SRT,"Tissue")
| (T-D016E,SRT,"Bone")
|
|-
|3
|skin
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|4
|connective tissue
|style="background:rgb(111,184,210)"|rgb(111,184,210)
|
|
|
|
|
|
|
|
|-
|5
|blood
|style="background:rgb(216,101,79)"|rgb(216,101,79)
|
|
|
|
|
|
|
|
|-
|6
|organ
|style="background:rgb(221,130,101)"|rgb(221,130,101)
|
|
|
|
|
|
|
|
|-
|7
|mass
|style="background:rgb(144,238,144)"|rgb(144,238,144)
| Could be tumor or other lesion
|
|
|
|
| (M-01000,SRT,"Morphologically Altered Structure")
| (M-03000,SRT,"Mass") - CID 7159++
|
|-
|8
|muscle
|style="background:rgb(192,104,88)"|rgb(192,104,88)
|
|
|
|
|
| (T-D0050,SRT,"Tissue")
| (T-13001,SRT,"Muscle") - CID 7160 (should refactor)
|
|-
|9
|foreign object
|style="background:rgb(220,245,20)"|rgb(220,245,20)
| Implants, surical instruments, table...
|
|
|
|
| (A-00004,SRT,"Physical Object")
| (M-30400,SRT,"Foreign Body")
|
|-
|10
|waste
|style="background:rgb(78,63,0)"|rgb(78,63,0)
|
|
|
|
|
|
|
|
|-
|11
|teeth
|style="background:rgb(255,250,220)"|rgb(255,250,220)
|
|
|
|
|
|
|
|
|-
|12
|fat
|style="background:rgb(230,220,70)"|rgb(230,220,70)
|
|
|
|
|
|
|
|
|-
|13
|gray matter
|style="background:rgb(200,200,235)"|rgb(200,200,235)
| cf. 39 and 116
|
|
|
|
| (T-D0050,SRT,"Tissue")
| (T-A0096,SRT,"Gray Matter") - CID 7153 Edited
|
|-
|14
|white matter
|style="background:rgb(250,250,210)"|rgb(250,250,210)
|
|
|
|
|
| (T-D0050,SRT,"Tissue")
| (T-A0095,SRT,"White Matter") - CID 7153 Edited
|
|-
|15
|nerve
|style="background:rgb(244,214,49)"|rgb(244,214,49)
|
|
|
|
|
|
|
|
|-
|16
|vein
|style="background:rgb(0,151,206)"|rgb(0,151,206)
|
|
|
|
|
|
|
|
|-
|17
|artery
|style="background:rgb(216,101,79)"|rgb(216,101,79)
|
|
|
|
|
|
|
|
|-
|18
|capillary
|style="background:rgb(183,156,220)"|rgb(183,156,220)
|
|
|
|
|
|
|
|
|-
|19
|ligament
|style="background:rgb(183,214,211)"|rgb(183,214,211)
|
|
|
|
|
|
|
|
|-
|20
|tendon
|style="background:rgb(152,189,207)"|rgb(152,189,207)
|
|
|
|
|
|
|
|
|-
|21
|cartilage
|style="background:rgb(111,184,210)"|rgb(111,184,210)
|
|
|
|
|
|
|
|
|-
|22
|meniscus
|style="background:rgb(178,212,242)"|rgb(178,212,242)
|
|
|
|
|
|
|
|
|-
|23
|lymph node
|style="background:rgb(68,172,100)"|rgb(68,172,100)
|
|
|
|
|
|
|
|
|-
|24
|lymphatic vessel
|style="background:rgb(111,197,131)"|rgb(111,197,131)
|
|
|
|
|
|
|
|
|-
|25
|cerebro-spinal fluid
|style="background:rgb(85,188,255)"|rgb(85,188,255)
| cf. 106
|
|
|
|
| (T-D0050,SRT,"Tissue")
| (T-A1000,SRT,"Cerebrospinal Fluid") - CID 7153
|
|-
|26
|bile
|style="background:rgb(0,145,30)"|rgb(0,145,30)
|
|
|
|
|
|
|
|
|-
|27
|urine
|style="background:rgb(214,230,130)"|rgb(214,230,130)
|
|
|
|
|
|
|
|
|-
|28
|feces
|style="background:rgb(78,63,0)"|rgb(78,63,0)
|
|
|
|
|
|
|
|
|-
|29
|gas
|style="background:rgb(218,255,255)"|rgb(218,255,255)
|
|
|
|
|
|
|
|
|-
|30
|fluid
|style="background:rgb(170,250,250)"|rgb(170,250,250)
|
|
|
|
|
|
|
|
|-
|31
|edema
|style="background:rgb(140,224,228)"|rgb(140,224,228)
|
|
|
|
|
| (M-01000,SRT,"Morphologically Altered Structure")
| (M-36300,SRT,"Edema") - CID 7159++
|
|-
|32
|bleeding
|style="background:rgb(188,65,28)"|rgb(188,65,28)
|
|
|
|
|
| (M-01000,SRT,"Morphologically Altered Structure")
| (M-37000,SRT,"Hemorrhage") - CID 7159++
|
|-
|33
|necrosis
|style="background:rgb(216,191,216)"|rgb(216,191,216)
|
|
|
|
|
| (M-01000,SRT,"Morphologically Altered Structure")
| (M-54000,SRT,"Necrosis") - CID 7159
|
|-
|34
|clot
|style="background:rgb(145,60,66)"|rgb(145,60,66)
|
|
|
|
|
| (M-01000,SRT,"Morphologically Altered Structure")
| (M-35000,SRT,"Blood Clot") - CID 7159++
|
|-
|35
|embolism
|style="background:rgb(150,98,83)"|rgb(150,98,83)
|
|
|
|
|
| (M-01000,SRT,"Morphologically Altered Structure")
| (M-35300,SRT,"Embolus") - CID 7159++
|
|-
|36
|head
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|37
|central nervous system
|style="background:rgb(244,214,49)"|rgb(244,214,49)
|
|
|
|
|
|
|
|
|-
|38
|brain
|style="background:rgb(250,250,225)"|rgb(250,250,225)
|
|
|
|
|
| ? tissue or structure
| (T-A0100,SRT,"Brain") - CID 7153++
|
|-
|39
|gray matter of brain
|style="background:rgb(200,200,215)"|rgb(200,200,215)
| cf. 13 and 116
|
|
|
|
| (T-D0050,SRT,"Tissue")
| (T-A2020,SRT,"Cerebral Gray Matter") - CID 7153 Edited
|
|-
|40
|telencephalon
|style="background:rgb(68,131,98)"|rgb(68,131,98)
|
|
|
|
|
|
|
|
|-
|41
|cerebral cortex
|style="background:rgb(128,174,128)"|rgb(128,174,128)
|
|
|
|
|
|
|
|
|-
|42
|right frontal lobe
|style="background:rgb(83,146,164)"|rgb(83,146,164)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A2218,SRT,"Frontal Lobe") - CID 7153++
| (G-A100,SRT,"Right")
|-
|43
|left frontal lobe
|style="background:rgb(83,146,164)"|rgb(83,146,164)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A2218,SRT,"Frontal Lobe") - CID 7153++
| (G-A101,SRT,"Left")
|-
|44
|right temporal lobe
|style="background:rgb(162,115,105)"|rgb(162,115,105)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A2513,SRT,"Temporal Lobe") - CID 7153++
| (G-A100,SRT,"Right")
|-
|45
|left temporal lobe
|style="background:rgb(162,115,105)"|rgb(162,115,105)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A2513,SRT,"Temporal Lobe") - CID 7153++
| (G-A101,SRT,"Left")
|-
|46
|right parietal lobe
|style="background:rgb(141,93,137)"|rgb(141,93,137)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A230F,SRT,"Parietal Lobe") - CID 7153++
| (G-A100,SRT,"Right")
|-
|47
|left parietal lobe
|style="background:rgb(141,93,137)"|rgb(141,93,137)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A230F,SRT,"Parietal Lobe") - CID 7153++
| (G-A101,SRT,"Left")
|-
|48
|right occipital lobe
|style="background:rgb(182,166,110)"|rgb(182,166,110)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A240F,SRT,"Occipital Lobe") - CID 7153++
| (G-A100,SRT,"Right")
|-
|49
|left occipital lobe
|style="background:rgb(182,166,110)"|rgb(182,166,110)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A240F,SRT,"Occipital Lobe") - CID 7153++
| (G-A101,SRT,"Left")
|-
|50
|right insular lobe
|style="background:rgb(188,135,166)"|rgb(188,135,166)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A2615,SRT,"Insula") - CID 7153++
| (G-A100,SRT,"Right")
|-
|51
|left insular lobe
|style="background:rgb(188,135,166)"|rgb(188,135,166)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A2615,SRT,"Insula") - CID 7153++
| (G-A101,SRT,"Left")
|-
|52
|right limbic lobe
|style="background:rgb(154,150,201)"|rgb(154,150,201)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A0036,SRT,"Limbic Lobe") - CID 7153++
| (G-A100,SRT,"Right")
|-
|53
|left limbic lobe
|style="background:rgb(154,150,201)"|rgb(154,150,201)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A0036,SRT,"Limbic Lobe") - CID 7153++
| (G-A101,SRT,"Left")
|-
|54
|right striatum
|style="background:rgb(177,140,190)"|rgb(177,140,190)
|
|
|
|
|
|
|
|
|-
|55
|left striatum
|style="background:rgb(177,140,190)"|rgb(177,140,190)
|
|
|
|
|
|
|
|
|-
|56
|right caudate nucleus
|style="background:rgb(30,111,85)"|rgb(30,111,85)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A3201,SRT,"Caudate Nucleus") - CID 7153++
| (G-A100,SRT,"Right")
|-
|57
|left caudate nucleus
|style="background:rgb(30,111,85)"|rgb(30,111,85)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A3201,SRT,"Caudate Nucleus") - CID 7153++
| (G-A101,SRT,"Left")
|-
|58
|right putamen
|style="background:rgb(210,157,166)"|rgb(210,157,166)
|
|
|
|
|
|
|
|
|-
|59
|left putamen
|style="background:rgb(210,157,166)"|rgb(210,157,166)
|
|
|
|
|
|
|
|
|-
|60
|right pallidum
|style="background:rgb(48,129,126)"|rgb(48,129,126)
|
|
|
|
|
|
|
|
|-
|61
|left pallidum
|style="background:rgb(48,129,126)"|rgb(48,129,126)
|
|
|
|
|
|
|
|
|-
|62
|right amygdaloid complex
|style="background:rgb(98,153,112)"|rgb(98,153,112)
|
|
|
|
|
|
|
|
|-
|63
|left amygdaloid complex
|style="background:rgb(98,153,112)"|rgb(98,153,112)
|
|
|
|
|
|
|
|
|-
|64
|diencephalon
|style="background:rgb(69,110,53)"|rgb(69,110,53)
|
|
|
|
|
|
|
|
|-
|65
|thalamus
|style="background:rgb(166,113,137)"|rgb(166,113,137)
|
|
|
|
|
|
|
|
|-
|66
|right thalamus
|style="background:rgb(122,101,38)"|rgb(122,101,38)
|
|
|
|
|
|
|
|
|-
|67
|left thalamus
|style="background:rgb(122,101,38)"|rgb(122,101,38)
|
|
|
|
|
|
|
|
|-
|68
|pineal gland
|style="background:rgb(253,135,192)"|rgb(253,135,192)
|
|
|
|
|
|
|
|
|-
|69
|midbrain
|style="background:rgb(145,92,109)"|rgb(145,92,109)
|
|
|
|
|
|
|
|
|-
|70
|substantia nigra
|style="background:rgb(46,101,131)"|rgb(46,101,131)
|
|
|
|
|
|
|
|
|-
|71
|right substantia nigra
|style="background:rgb(0,108,112)"|rgb(0,108,112)
|
|
|
|
|
|
|
|
|-
|72
|left substantia nigra
|style="background:rgb(0,108,112)"|rgb(0,108,112)
|
|
|
|
|
|
|
|
|-
|73
|cerebral white matter
|style="background:rgb(250,250,225)"|rgb(250,250,225)
|
|
|
|
|
|
|
|
|-
|74
|right superior longitudinal fasciculus
|style="background:rgb(127,150,88)"|rgb(127,150,88)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A2820,SRT,"Superior Longitudinal Fasciculus") - CID 7153++
| (G-A100,SRT,"Right")
|-
|75
|left superior longitudinal fasciculus
|style="background:rgb(127,150,88)"|rgb(127,150,88)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A2820,SRT,"Superior Longitudinal Fasciculus") - CID 7153++
| (G-A101,SRT,"Left")
|-
|76
|right inferior longitudinal fasciculus
|style="background:rgb(159,116,163)"|rgb(159,116,163)
|
|
|
|
|
|
|
|
|-
|77
|left inferior longitudinal fasciculus
|style="background:rgb(159,116,163)"|rgb(159,116,163)
|
|
|
|
|
|
|
|
|-
|78
|right arcuate fasciculus
|style="background:rgb(125,102,154)"|rgb(125,102,154)
| DC: SNOMED needs fixing - specifies arcuate as synonym (ratehr than part of) superior longitudinal fasciculus
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (276650,FMA,"Arcuate Fasciculus") - CID 7153++
| (G-A100,SRT,"Right")
|-
|79
|left arcuate fasciculus
|style="background:rgb(125,102,154)"|rgb(125,102,154)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (276650,FMA,"Arcuate Fasciculus") - CID 7153++
| (G-A101,SRT,"Left")
|-
|80
|right uncinate fasciculus
|style="background:rgb(106,174,155)"|rgb(106,174,155)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A2831,SRT,"Uncinate Fasciculus") - CID 7153++
| (G-A100,SRT,"Right")
|-
|81
|left uncinate fasciculus
|style="background:rgb(106,174,155)"|rgb(106,174,155)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A2831,SRT,"Uncinate Fasciculus") - CID 7153++
| (G-A101,SRT,"Left")
|-
|82
|right cingulum bundle
|style="background:rgb(154,146,83)"|rgb(154,146,83)
|
|
|
|
|
|
|
|
|-
|83
|left cingulum bundle
|style="background:rgb(154,146,83)"|rgb(154,146,83)
|
|
|
|
|
|
|
|
|-
|84
|projection fibers
|style="background:rgb(126,126,55)"|rgb(126,126,55)
|
|
|
|
|
|
|
|
|-
|85
|right corticospinal tract
|style="background:rgb(201,160,133)"|rgb(201,160,133)
|
|
|
|
|
|
|
|
|-
|86
|left corticospinal tract
|style="background:rgb(201,160,133)"|rgb(201,160,133)
|
|
|
|
|
|
|
|
|-
|87
|right optic radiation
|style="background:rgb(78,152,141)"|rgb(78,152,141)
|
|
|
|
|
|
|
|
|-
|88
|left optic radiation
|style="background:rgb(78,152,141)"|rgb(78,152,141)
|
|
|
|
|
|
|
|
|-
|89
|right medial lemniscus
|style="background:rgb(174,140,103)"|rgb(174,140,103)
|
|
|
|
|
|
|
|
|-
|90
|left medial lemniscus
|style="background:rgb(174,140,103)"|rgb(174,140,103)
|
|
|
|
|
|
|
|
|-
|91
|right superior cerebellar peduncle
|style="background:rgb(139,126,177)"|rgb(139,126,177)
|
|
|
|
|
|
|
|
|-
|92
|left superior cerebellar peduncle
|style="background:rgb(139,126,177)"|rgb(139,126,177)
|
|
|
|
|
|
|
|
|-
|93
|right middle cerebellar peduncle
|style="background:rgb(148,120,72)"|rgb(148,120,72)
|
|
|
|
|
|
|
|
|-
|94
|left middle cerebellar peduncle
|style="background:rgb(148,120,72)"|rgb(148,120,72)
|
|
|
|
|
|
|
|
|-
|95
|right inferior cerebellar peduncle
|style="background:rgb(186,135,135)"|rgb(186,135,135)
|
|
|
|
|
|
|
|
|-
|96
|left inferior cerebellar peduncle
|style="background:rgb(186,135,135)"|rgb(186,135,135)
|
|
|
|
|
|
|
|
|-
|97
|optic chiasm
|style="background:rgb(99,106,24)"|rgb(99,106,24)
|
|
|
|
|
|
|
|
|-
|98
|right optic tract
|style="background:rgb(156,171,108)"|rgb(156,171,108)
|
|
|
|
|
|
|
|
|-
|99
|left optic tract
|style="background:rgb(156,171,108)"|rgb(156,171,108)
|
|
|
|
|
|
|
|
|-
|100
|right fornix
|style="background:rgb(64,123,147)"|rgb(64,123,147)
|
|
|
|
|
|
|
|
|-
|101
|left fornix
|style="background:rgb(64,123,147)"|rgb(64,123,147)
|
|
|
|
|
|
|
|
|-
|102
|commissural fibers
|style="background:rgb(138,95,74)"|rgb(138,95,74)
|
|
|
|
|
|
|
|
|-
|103
|corpus callosum
|style="background:rgb(97,113,158)"|rgb(97,113,158)
|
|
|
|
|
|
|
|
|-
|104
|posterior commissure
|style="background:rgb(126,161,197)"|rgb(126,161,197)
|
|
|
|
|
|
|
|
|-
|105
|cerebellar white matter
|style="background:rgb(194,195,164)"|rgb(194,195,164)
|
|
|
|
|
|
| (T-A6080,SRT,"Cerebellar White Matter") - CID 7153++
|
|-
|106
|CSF space
|style="background:rgb(85,188,255)"|rgb(85,188,255)
| DC: cf. 25; is this one supposed to be brain-specific? assume so
|
|
|
|
|
| (T-A0109,SRT,"Brain Cerebrospinal Fluid Pathway") - CID 7153++
|
|-
|107
|ventricles of brain
|style="background:rgb(88,106,215)"|rgb(88,106,215)
|
|
|
|
|
|
|
|
|-
|108
|right lateral ventricle
|style="background:rgb(88,106,215)"|rgb(88,106,215)
|
|
|
|
|
|
|
|
|-
|109
|left lateral ventricle
|style="background:rgb(88,106,215)"|rgb(88,106,215)
|
|
|
|
|
|
|
|
|-
|110
|right third ventricle
|style="background:rgb(88,106,215)"|rgb(88,106,215)
|
|
|
|
|
|
|
|
|-
|111
|left third ventricle
|style="background:rgb(88,106,215)"|rgb(88,106,215)
|
|
|
|
|
|
|
|
|-
|112
|cerebral aqueduct
|style="background:rgb(88,106,215)"|rgb(88,106,215)
|
|
|
|
|
|
|
|
|-
|113
|fourth ventricle
|style="background:rgb(88,106,215)"|rgb(88,106,215)
|
|
|
|
|
|
|
|
|-
|114
|subarachnoid space
|style="background:rgb(88,106,215)"|rgb(88,106,215)
|
|
|
|
|
|
|
|
|-
|115
|spinal cord
|style="background:rgb(244,214,49)"|rgb(244,214,49)
|
|
|
|
|
|
|
|
|-
|116
|gray matter of spinal cord
|style="background:rgb(200,200,215)"|rgb(200,200,215)
| cf. 7 and 39
|
|
|
|
|
| (T-A7020,SRT,"Spinal Cord Gray Matter") - CID 7153++
|
|-
|117
|white matter of spinal cord
|style="background:rgb(250,250,225)"|rgb(250,250,225)
|
|
|
|
|
|
| (T-A7070,SRT,"Spinal Cord White Matter") - CID 7153++
|
|-
|118
|endocrine system of brain
|style="background:rgb(82,174,128)"|rgb(82,174,128)
|
|
|
|
|
|
|
|
|-
|119
|pituitary gland
|style="background:rgb(57,157,110)"|rgb(57,157,110)
|
|
|
|
|
|
|
|
|-
|120
|adenohypophysis
|style="background:rgb(60,143,83)"|rgb(60,143,83)
|
|
|
|
|
|
|
|
|-
|121
|neurohypophysis
|style="background:rgb(92,162,109)"|rgb(92,162,109)
|
|
|
|
|
|
|
|
|-
|122
|meninges
|style="background:rgb(255,244,209)"|rgb(255,244,209)
|
|
|
|
|
|
| (T-A1110,SRT,"Meninges") - CID 7153
|
|-
|123
|dura mater
|style="background:rgb(255,244,209)"|rgb(255,244,209)
|
|
|
|
|
|
|
|
|-
|124
|arachnoid
|style="background:rgb(255,244,209)"|rgb(255,244,209)
|
|
|
|
|
|
|
|
|-
|125
|pia mater
|style="background:rgb(255,244,209)"|rgb(255,244,209)
|
|
|
|
|
|
|
|
|-
|126
|muscles of head
|style="background:rgb(201,121,77)"|rgb(201,121,77)
|
|
|
|
|
|
|
|
|-
|127
|salivary glands
|style="background:rgb(70,163,117)"|rgb(70,163,117)
|
|
|
|
|
|
|
|
|-
|128
|lips
|style="background:rgb(188,91,95)"|rgb(188,91,95)
|
|
|
|
|
|
|
|
|-
|129
|nose
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|130
|tongue
|style="background:rgb(166,84,94)"|rgb(166,84,94)
|
|
|
|
|
|
|
|
|-
|131
|soft palate
|style="background:rgb(182,105,107)"|rgb(182,105,107)
|
|
|
|
|
|
|
|
|-
|132
|right inner ear
|style="background:rgb(229,147,118)"|rgb(229,147,118)
|
|
|
|
|
|
|
|
|-
|133
|left inner ear
|style="background:rgb(229,147,118)"|rgb(229,147,118)
|
|
|
|
|
|
|
|
|-
|134
|right external ear
|style="background:rgb(174,122,90)"|rgb(174,122,90)
|
|
|
|
|
|
|
|
|-
|135
|left external ear
|style="background:rgb(174,122,90)"|rgb(174,122,90)
|
|
|
|
|
|
|
|
|-
|136
|right middle ear
|style="background:rgb(201,112,73)"|rgb(201,112,73)
|
|
|
|
|
|
|
|
|-
|137
|left middle ear
|style="background:rgb(201,112,73)"|rgb(201,112,73)
|
|
|
|
|
|
|
|
|-
|138
|right eyeball
|style="background:rgb(194,142,0)"|rgb(194,142,0)
|
|
|
|
|
|
|
|
|-
|139
|left eyeball
|style="background:rgb(194,142,0)"|rgb(194,142,0)
|
|
|
|
|
|
|
|
|-
|140
|skull
|style="background:rgb(241,213,144)"|rgb(241,213,144)
|
|
|
|
|
|
| (T-11100,SRT,"Skull") - CID 7153
|
|-
|141
|right frontal bone
|style="background:rgb(203,179,77)"|rgb(203,179,77)
|
|
|
|
|
|
|
|
|-
|142
|left frontal bone
|style="background:rgb(203,179,77)"|rgb(203,179,77)
|
|
|
|
|
|
|
|
|-
|143
|right parietal bone
|style="background:rgb(229,204,109)"|rgb(229,204,109)
|
|
|
|
|
|
|
|
|-
|144
|left parietal bone
|style="background:rgb(229,204,109)"|rgb(229,204,109)
|
|
|
|
|
|
|
|
|-
|145
|right temporal bone
|style="background:rgb(255,243,152)"|rgb(255,243,152)
|
|
|
|
|
|
|
|
|-
|146
|left temporal bone
|style="background:rgb(255,243,152)"|rgb(255,243,152)
|
|
|
|
|
|
|
|
|-
|147
|right sphenoid bone
|style="background:rgb(209,185,85)"|rgb(209,185,85)
|
|
|
|
|
|
|
|
|-
|148
|left sphenoid bone
|style="background:rgb(209,185,85)"|rgb(209,185,85)
|
|
|
|
|
|
|
|
|-
|149
|right ethmoid bone
|style="background:rgb(248,223,131)"|rgb(248,223,131)
|
|
|
|
|
|
|
|
|-
|150
|left ethmoid bone
|style="background:rgb(248,223,131)"|rgb(248,223,131)
|
|
|
|
|
|
|
|
|-
|151
|occipital bone
|style="background:rgb(255,230,138)"|rgb(255,230,138)
|
|
|
|
|
|
|
|
|-
|152
|maxilla
|style="background:rgb(196,172,68)"|rgb(196,172,68)
|
|
|
|
|
|
|
|
|-
|153
|right zygomatic bone
|style="background:rgb(255,255,167)"|rgb(255,255,167)
| DC: ? use more general (T-111BE,SRT,"Zygoma"); also, where is the left one ??
| (T-11167,SRT,"Zygomatic arch") - CID 4028
| (G-A100,SRT,"Right")
|
|
|
|
|
|-
|154
|right lacrimal bone
|style="background:rgb(255,250,160)"|rgb(255,250,160)
|
|
|
|
|
|
|
|
|-
|155
|vomer bone
|style="background:rgb(255,237,145)"|rgb(255,237,145)
|
|
|
|
|
|
|
|
|-
|156
|right palatine bone
|style="background:rgb(242,217,123)"|rgb(242,217,123)
|
| (T-111A8,SRT,"Palatine Bone")
| (G-A100,SRT,"Right")
|
|
|
|
|
|-
|157
|left palatine bone
|style="background:rgb(242,217,123)"|rgb(242,217,123)
|
| (T-111A8,SRT,"Palatine Bone")
| (G-A101,SRT,"Left")
|
|
|
|
|
|-
|158
|mandible
|style="background:rgb(222,198,101)"|rgb(222,198,101)
|
|
|
|
|
|
|
|
|-
|159
|neck
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|160
|muscles of neck
|style="background:rgb(213,124,109)"|rgb(213,124,109)
|
|
|
|
|
|
|
|
|-
|161
|pharynx
|style="background:rgb(184,105,108)"|rgb(184,105,108)
|
|
|
|
|
|
|
|
|-
|162
|larynx
|style="background:rgb(150,208,243)"|rgb(150,208,243)
|
|
|
|
|
|
|
|
|-
|163
|thyroid gland
|style="background:rgb(62,162,114)"|rgb(62,162,114)
|
|
|
|
|
|
|
|
|-
|164
|right parathyroid glands
|style="background:rgb(62,162,114)"|rgb(62,162,114)
|
|
|
|
|
|
|
|
|-
|165
|left parathyroid glands
|style="background:rgb(62,162,114)"|rgb(62,162,114)
|
|
|
|
|
|
|
|
|-
|166
|skeleton of neck
|style="background:rgb(242,206,142)"|rgb(242,206,142)
|
|
|
|
|
|
|
|
|-
|167
|hyoid bone
|style="background:rgb(250,210,139)"|rgb(250,210,139)
|
|
|
|
|
|
|
|
|-
|168
|cervical vertebral column
|style="background:rgb(255,255,207)"|rgb(255,255,207)
|
|
|
|
|
|
|
|
|-
|169
|thorax
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|170
|trachea
|style="background:rgb(182,228,255)"|rgb(182,228,255)
|
|
|
|
|
|
|
|
|-
|171
|bronchi
|style="background:rgb(175,216,244)"|rgb(175,216,244)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-26000,SRT,"Bronchi") - CID 7155
|
|-
|172
|right lung
|style="background:rgb(197,165,145)"|rgb(197,165,145)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-28000,SRT,"Lung") - CID 7155
| (G-A100,SRT,"Right")
|-
|173
|left lung
|style="background:rgb(197,165,145)"|rgb(197,165,145)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-28000,SRT,"Lung") - CID 7155
| (G-A101,SRT,"Left")
|-
|174
|superior lobe of right lung
|style="background:rgb(172,138,115)"|rgb(172,138,115)
|
|
|
|
|
|
|
|
|-
|175
|superior lobe of left lung
|style="background:rgb(172,138,115)"|rgb(172,138,115)
|
|
|
|
|
|
|
|
|-
|176
|middle lobe of right lung
|style="background:rgb(202,164,140)"|rgb(202,164,140)
|
|
|
|
|
|
|
|
|-
|177
|inferior lobe of right lung
|style="background:rgb(224,186,162)"|rgb(224,186,162)
|
|
|
|
|
|
|
|
|-
|178
|inferior lobe of left lung
|style="background:rgb(224,186,162)"|rgb(224,186,162)
|
|
|
|
|
|
|
|
|-
|179
|pleura
|style="background:rgb(255,245,217)"|rgb(255,245,217)
|
|
|
|
|
|
|
|
|-
|180
|heart
|style="background:rgb(206,110,84)"|rgb(206,110,84)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-32000,SRT,"Heart") - CID 7152
|
|-
|181
|right atrium
|style="background:rgb(210,115,89)"|rgb(210,115,89)
|
|
|
|
|
|
|
|
|-
|182
|left atrium
|style="background:rgb(203,108,81)"|rgb(203,108,81)
|
|
|
|
|
|
|
|
|-
|183
|atrial septum
|style="background:rgb(233,138,112)"|rgb(233,138,112)
|
|
|
|
|
|
|
|
|-
|184
|ventricular septum
|style="background:rgb(195,100,73)"|rgb(195,100,73)
|
|
|
|
|
|
|
|
|-
|185
|right ventricle of heart
|style="background:rgb(181,85,57)"|rgb(181,85,57)
| DC: SRT code is precordinated; no need for laterality modifier
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-32500,SRT,"Right Ventricle") - CID 7152
|
|-
|186
|left ventricle of heart
|style="background:rgb(152,55,13)"|rgb(152,55,13)
| DC: SRT code is precordinated; no need for laterality modifier
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-32600,SRT,"Left Ventricle") - CID 7152
|
|-
|187
|mitral valve
|style="background:rgb(159,63,27)"|rgb(159,63,27)
|
|
|
|
|
|
|
|
|-
|188
|tricuspid valve
|style="background:rgb(166,70,38)"|rgb(166,70,38)
|
|
|
|
|
|
|
|
|-
|189
|aortic valve
|style="background:rgb(218,123,97)"|rgb(218,123,97)
|
|
|
|
|
|
|
|
|-
|190
|pulmonary valve
|style="background:rgb(225,130,104)"|rgb(225,130,104)
|
|
|
|
|
|
|
|
|-
|191
|aorta
|style="background:rgb(224,97,76)"|rgb(224,97,76)
| DC: ? need specific parts (ascending, arch, descending thoracic, abdominal)
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-42000,SRT,"Aorta") - CID 7152
|
|-
|192
|pericardium
|style="background:rgb(255,244,209)"|rgb(255,244,209)
|
|
|
|
|
|
|
|
|-
|193
|pericardial cavity
|style="background:rgb(184,122,154)"|rgb(184,122,154)
|
|
|
|
|
|
|
|
|-
|194
|esophagus
|style="background:rgb(211,171,143)"|rgb(211,171,143)
|
|
|
|
|
|
|
|
|-
|195
|thymus
|style="background:rgb(47,150,103)"|rgb(47,150,103)
|
|
|
|
|
|
|
|
|-
|196
|mediastinum
|style="background:rgb(255,244,209)"|rgb(255,244,209)
|
|
|
|
|
|
|
|
|-
|197
|skin of thoracic wall
|style="background:rgb(173,121,88)"|rgb(173,121,88)
|
|
|
|
|
|
|
|
|-
|198
|muscles of thoracic wall
|style="background:rgb(188,95,76)"|rgb(188,95,76)
|
|
|
|
|
|
|
|
|-
|199
|skeleton of thorax
|style="background:rgb(255,239,172)"|rgb(255,239,172)
|
|
|
|
|
|
|
|
|-
|200
|thoracic vertebral column
|style="background:rgb(226,202,134)"|rgb(226,202,134)
|
|
|
|
|
|
|
|
|-
|201
|ribs
|style="background:rgb(253,232,158)"|rgb(253,232,158)
|
|
|
|
|
|
|
|
|-
|202
|sternum
|style="background:rgb(244,217,154)"|rgb(244,217,154)
|
|
|
|
|
|
|
|
|-
|203
|right clavicle
|style="background:rgb(205,179,108)"|rgb(205,179,108)
|
|
|
|
|
|
|
|
|-
|204
|left clavicle
|style="background:rgb(205,179,108)"|rgb(205,179,108)
|
|
|
|
|
|
|
|
|-
|205
|abdominal cavity
|style="background:rgb(186,124,161)"|rgb(186,124,161)
|
|
|
|
|
|
|
|
|-
|206
|abdomen
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|207
|peritoneum
|style="background:rgb(255,255,220)"|rgb(255,255,220)
|
|
|
|
|
|
|
|
|-
|208
|omentum
|style="background:rgb(234,234,194)"|rgb(234,234,194)
|
|
|
|
|
|
|
|
|-
|209
|peritoneal cavity
|style="background:rgb(204,142,178)"|rgb(204,142,178)
|
|
|
|
|
|
|
|
|-
|210
|retroperitoneal space
|style="background:rgb(180,119,153)"|rgb(180,119,153)
|
|
|
|
|
|
|
|
|-
|211
|stomach
|style="background:rgb(216,132,105)"|rgb(216,132,105)
|
|
|
|
|
|
|
|
|-
|212
|duodenum
|style="background:rgb(255,253,229)"|rgb(255,253,229)
|
|
|
|
|
|
|
|
|-
|213
|small bowel
|style="background:rgb(205,167,142)"|rgb(205,167,142)
|
|
|
|
|
|
|
|
|-
|214
|colon
|style="background:rgb(204,168,143)"|rgb(204,168,143)
|
|
|
|
|
|
|
|
|-
|215
|anus
|style="background:rgb(255,224,199)"|rgb(255,224,199)
|
|
|
|
|
|
|
|
|-
|216
|liver
|style="background:rgb(221,130,101)"|rgb(221,130,101)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-62000,SRT,"Liver") - CID 7154
|
|-
|217
|biliary tree
|style="background:rgb(0,145,30)"|rgb(0,145,30)
|
|
|
|
|
|
|
|
|-
|218
|gallbladder
|style="background:rgb(139,150,98)"|rgb(139,150,98)
|
|
|
|
|
|
|
|
|-
|219
|pancreas
|style="background:rgb(249,180,111)"|rgb(249,180,111)
|
|
|
|
|
|
|
|
|-
|220
|spleen
|style="background:rgb(157,108,162)"|rgb(157,108,162)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-C3000,SRT,"Spleen) - CID 7154
|
|-
|221
|urinary system
|style="background:rgb(203,136,116)"|rgb(203,136,116)
|
|
|
|
|
|
|
|
|-
|222
|right kidney
|style="background:rgb(185,102,83)"|rgb(185,102,83)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-71000,SRT,"Kidney") - CID 7154
| (G-A100,SRT,"Right")
|-
|223
|left kidney
|style="background:rgb(185,102,83)"|rgb(185,102,83)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-71000,SRT,"Kidney") - CID 7154
| (G-A101,SRT,"Left")
|-
|224
|right ureter
|style="background:rgb(247,182,164)"|rgb(247,182,164)
|
|
|
|
|
|
|
|
|-
|225
|left ureter
|style="background:rgb(247,182,164)"|rgb(247,182,164)
|
|
|
|
|
|
|
|
|-
|226
|urinary bladder
|style="background:rgb(222,154,132)"|rgb(222,154,132)
|
|
|
|
|
|
|
|
|-
|227
|urethra
|style="background:rgb(124,186,223)"|rgb(124,186,223)
|
|
|
|
|
|
|
|
|-
|228
|right adrenal gland
|style="background:rgb(249,186,150)"|rgb(249,186,150)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-B3000,SRT,"Adrenal Gland")
| (G-A100,SRT,"Right")
|-
|229
|left adrenal gland
|style="background:rgb(249,186,150)"|rgb(249,186,150)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-B3000,SRT,"Adrenal Gland")
| (G-A101,SRT,"Left")
|-
|230
|female internal genitalia
|style="background:rgb(244,170,147)"|rgb(244,170,147)
|
|
|
|
|
|
|
|
|-
|231
|uterus
|style="background:rgb(255,181,158)"|rgb(255,181,158)
|
|
|
|
|
|
|
|
|-
|232
|right fallopian tube
|style="background:rgb(255,190,165)"|rgb(255,190,165)
|
|
|
|
|
|
|
|
|-
|233
|left fallopian tube
|style="background:rgb(227,153,130)"|rgb(227,153,130)
|
|
|
|
|
|
|
|
|-
|234
|right ovary
|style="background:rgb(213,141,113)"|rgb(213,141,113)
|
|
|
|
|
|
|
|
|-
|235
|left ovary
|style="background:rgb(213,141,113)"|rgb(213,141,113)
|
|
|
|
|
|
|
|
|-
|236
|vagina
|style="background:rgb(193,123,103)"|rgb(193,123,103)
|
|
|
|
|
|
|
|
|-
|237
|male internal genitalia
|style="background:rgb(216,146,127)"|rgb(216,146,127)
|
|
|
|
|
|
|
|
|-
|238
|prostate
|style="background:rgb(230,158,140)"|rgb(230,158,140)
|
|
|
|
|
|
|
|
|-
|239
|right seminal vesicle
|style="background:rgb(245,172,147)"|rgb(245,172,147)
|
|
|
|
|
|
|
|
|-
|240
|left seminal vesicle
|style="background:rgb(245,172,147)"|rgb(245,172,147)
|
|
|
|
|
|
|
|
|-
|241
|right deferent duct
|style="background:rgb(241,172,151)"|rgb(241,172,151)
|
|
|
|
|
|
|
|
|-
|242
|left deferent duct
|style="background:rgb(241,172,151)"|rgb(241,172,151)
|
|
|
|
|
|
|
|
|-
|243
|skin of abdominal wall
|style="background:rgb(177,124,92)"|rgb(177,124,92)
|
|
|
|
|
|
|
|
|-
|244
|muscles of abdominal wall
|style="background:rgb(171,85,68)"|rgb(171,85,68)
|
|
|
|
|
|
|
|
|-
|245
|skeleton of abdomen
|style="background:rgb(217,198,131)"|rgb(217,198,131)
|
|
|
|
|
|
|
|
|-
|246
|lumbar vertebral column
|style="background:rgb(212,188,102)"|rgb(212,188,102)
|
|
|
|
|
|
|
|
|-
|247
|female external genitalia
|style="background:rgb(185,135,134)"|rgb(185,135,134)
|
|
|
|
|
|
|
|
|-
|248
|male external genitalia
|style="background:rgb(185,135,134)"|rgb(185,135,134)
|
|
|
|
|
|
|
|
|-
|249
|skeleton of upper limb
|style="background:rgb(198,175,125)"|rgb(198,175,125)
|
|
|
|
|
|
|
|
|-
|250
|muscles of upper limb
|style="background:rgb(194,98,79)"|rgb(194,98,79)
|
|
|
|
|
|
|
|
|-
|251
|right upper limb
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|252
|left upper limb
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|253
|right shoulder
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|254
|left shoulder
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|255
|right arm
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|256
|left arm
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|257
|right elbow
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|258
|left elbow
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|259
|right forearm
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|260
|left forearm
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|261
|right wrist
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|262
|left wrist
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|263
|right hand
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|264
|left hand
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|265
|skeleton of lower limb
|style="background:rgb(255,238,170)"|rgb(255,238,170)
|
|
|
|
|
|
|
|
|-
|266
|muscles of lower limb
|style="background:rgb(206,111,93)"|rgb(206,111,93)
|
|
|
|
|
|
|
|
|-
|267
|right lower limb
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|268
|left lower limb
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|269
|right hip
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|270
|left hip
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|271
|right thigh
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|272
|left thigh
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|273
|right knee
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|274
|left knee
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|275
|right leg
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|276
|left leg
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|277
|right foot
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|278
|left foot
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|279
|peripheral nervous system
|style="background:rgb(216,186,0)"|rgb(216,186,0)
|
|
|
|
|
|
|
|
|-
|280
|autonomic nerve
|style="background:rgb(255,226,77)"|rgb(255,226,77)
|
|
|
|
|
|
|
|
|-
|281
|sympathetic trunk
|style="background:rgb(255,243,106)"|rgb(255,243,106)
|
|
|
|
|
|
|
|
|-
|282
|cranial nerves
|style="background:rgb(255,234,92)"|rgb(255,234,92)
|
|
|
|
|
|
|
|
|-
|283
|vagus nerve
|style="background:rgb(240,210,35)"|rgb(240,210,35)
|
|
|
|
|
|
|
|
|-
|284
|peripheral nerve
|style="background:rgb(224,194,0)"|rgb(224,194,0)
|
|
|
|
|
|
|
|
|-
|285
|circulatory system
|style="background:rgb(213,99,79)"|rgb(213,99,79)
|
|
|
|
|
|
|
|
|-
|286
|systemic arterial system
|style="background:rgb(217,102,81)"|rgb(217,102,81)
|
|
|
|
|
|
|
|
|-
|287
|systemic venous system
|style="background:rgb(0,147,202)"|rgb(0,147,202)
|
|
|
|
|
|
|
|
|-
|288
|pulmonary arterial system
|style="background:rgb(0,122,171)"|rgb(0,122,171)
|
|
|
|
|
|
|
|
|-
|289
|pulmonary venous system
|style="background:rgb(186,77,64)"|rgb(186,77,64)
|
|
|
|
|
|
|
|
|-
|290
|lymphatic system
|style="background:rgb(111,197,131)"|rgb(111,197,131)
|
|
|
|
|
|
|
|
|-
|291
|needle
|style="background:rgb(240,255,30)"|rgb(240,255,30)
|
|
|
|
|
| (A-00004,SRT,"Physical Object")
| (A-30360,SRT,"Needle") - CID 7157++
|
|-
|292
|region 0
|style="background:rgb(185,232,61)"|rgb(185,232,61)
|
|
|
|
|
|
|
|
|-
|293
|region 1
|style="background:rgb(0,226,255)"|rgb(0,226,255)
|
|
|
|
|
|
|
|
|-
|294
|region 2
|style="background:rgb(251,159,255)"|rgb(251,159,255)
|
|
|
|
|
|
|
|
|-
|295
|region 3
|style="background:rgb(230,169,29)"|rgb(230,169,29)
|
|
|
|
|
|
|
|
|-
|296
|region 4
|style="background:rgb(0,194,113)"|rgb(0,194,113)
|
|
|
|
|
|
|
|
|-
|297
|region 5
|style="background:rgb(104,160,249)"|rgb(104,160,249)
|
|
|
|
|
|
|
|
|-
|298
|region 6
|style="background:rgb(221,108,158)"|rgb(221,108,158)
|
|
|
|
|
|
|
|
|-
|299
|region 7
|style="background:rgb(137,142,0)"|rgb(137,142,0)
|
|
|
|
|
|
|
|
|-
|300
|region 8
|style="background:rgb(230,70,0)"|rgb(230,70,0)
|
|
|
|
|
|
|
|
|-
|301
|region 9
|style="background:rgb(0,147,0)"|rgb(0,147,0)
|
|
|
|
|
|
|
|
|-
|302
|region 10
|style="background:rgb(0,147,248)"|rgb(0,147,248)
|
|
|
|
|
|
|
|
|-
|303
|region 11
|style="background:rgb(231,0,206)"|rgb(231,0,206)
|
|
|
|
|
|
|
|
|-
|304
|region 12
|style="background:rgb(129,78,0)"|rgb(129,78,0)
|
|
|
|
|
|
|
|
|-
|305
|region 13
|style="background:rgb(0,116,0)"|rgb(0,116,0)
|
|
|
|
|
|
|
|
|-
|306
|region 14
|style="background:rgb(0,0,255)"|rgb(0,0,255)
|
|
|
|
|
|
|
|
|-
|307
|region 15
|style="background:rgb(157,0,0)"|rgb(157,0,0)
|
|
|
|
|
|
|
|
|-
|308
|unknown
|style="background:rgb(100,100,130)"|rgb(100,100,130)
|
|
|
|
|
|
|
|
|-
|309
|cyst
|style="background:rgb(205,205,100)"|rgb(205,205,100)
|
|
|
|
|
| (M-01000,SRT,"Morphologically Altered Structure")
| (M-3340A,SRT,"Cyst") - CID 7159
|
|-
|}

==New labels added==

{| class="wikitable sortable labelpage labelpagetable" border="1"
! integer_label
! text_label
! color
! notes
! anatomic region
! anatomic region modifier
! primary anatomic structure
! primary anatomic structure modifier
! segmented property category - CID 7150
! segmented property type
! segmented property type modifier
|-
| ??
|rectum
|style="background:rgb(0,0,0);color:white"|rgba(?,?,?,?)
|
|
|
|
|
| (M-01000,SRT,"Morphologically Altered Structure")
| (M-3340A,SRT,"Cyst") - CID 7159
|
|-
| ??
| left testis
|style="background:rgb(0,0,0);color:white"|rgba(?,?,?,?)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-94000,SRT,"Testis") - CID 7160
|
|-
| ??
| right testis
|style="background:rgb(0,0,0);color:white"|rgba(?,?,?,?)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-94000,SRT,"Testis") - CID 7160
|
|-
| ??
| cervix
|style="background:rgb(0,0,0);color:white"|rgba(?,?,?,?)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-83200,SRT,"Cervix") - CID 7160
|
|-
| ??
| diaphragm
|style="background:rgb(0,0,0);color:white"|rgba(?,?,?,?)
| DC: ? need left/right - probably not
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-D3400,SRT,"Diaphragm) - CID 7155
|
|-
| ??
| table
|style="background:rgb(0,0,0);color:white"|rgba(?,?,?,?)
| DC: cf. 9 - table detection is handled specifically by some systems
|
|
|
|
| (A-00004,SRT,"Physical Object")
| (A-17350,SRT,"Table") - CID 7158
|
|-
| ??
| clothing
|style="background:rgb(0,0,0);color:white"|rgba(?,?,?,?)
| cf. 9
|
|
|
|
| (A-00004,SRT,"Physical Object")
| (A-00916,SRT,"Clothing") - CID 7158
|
|-
|}

Segmentation objects allow to encode recommended display color in "Recommended Display CIELab Value" (0062,000D) attribute; these values are encoded in [http://en.wikipedia.org/wiki/Lab_color_space CIALab].

Projects:QIN:3D Slicer Annotation Image Markup:Standard Terminology

2012-09-18T13:25:03Z

Dclunie: /* Original labels categorized */

This is a collection of relevant pieces from:
* http://medical.nema.org/Dicom/2011/11_03pu.pdf
* http://medical.nema.org/Dicom/2011/11_16pu.pdf

=Segmentation image module attributes=

Segmentation image module attributes must in particular include the following (PS 3.3-2011, p.989):

[[Image:PS3.3-SegmentationAttributes.png]]

[[Image:PS3.3-CodedEntryData.png]]

==Code sequence attributes==

[[Image:PS3.3-CodeSequenceAttributes.png]]

==General Anatomy Macro==

The General Anatomy Macro is defined as follows (PS 3.3-2011, p.96):

[[Image:PS3.3-GeneralAnatomyMacro.png]]

==Coding Scheme Designators==

[[Image:PS3.3-CodingSchemeDesignators1.png]]

[[Image:PS3.3-CodingSchemeDesignators2.png]]

NOTE: this table is incomplete, consult PS 3.16-2011 p.43.

=RadLex=
* General information: http://rsna.org/RadLex.aspx
* License: http://rsna.org/uploadedFiles/RSNA/Content/Informatics/radlex_public_license_version_1-0-1.pdf
* Example hierarchy of the term mapping from RadLex browser (liver: http://www.radlex.org/RID/RID13419):

[[Image:RadLex_RID13419.png]]

=SNOMED=

David Clunie in email communication Sept 17, 2012:
<pre>
[...] The [DICOM] agreement with SNOMED
is to allow any implementer to use the terms included in DICOM in their
implementations and products without fee; it is not just to be able to
include them in the text of the standard documents.

So, since Slicer would be using the concepts to include in a DICOM SEG
object, you do not need any additional agreement, nor any agreement with
SNOMED to distribute the source code (my PixelMed Java DICOM toolkit is
full of SNOMED codes, for example, and I neither have not need such an
additional agreement).
</pre>

Notes on choosing SNOMED concepts when fleshing out the table, esp. regarding
anatomy. Make sure that you choose "(body structure)" concepts for anatomy,
and that you pick the "entire ..." concept rather than "structure of" etc.,
and if the choice is not obvious, include about your choice so that these can
be flagged for special attention during review.

=Mapping Slicer GeneralAnatomy LUT to Standard Terminology (work in progress)=
Original GeneralAnatomy LUT see here: http://www.slicer.org/slicerWiki/index.php/Slicer3:2010_GenericAnatomyColors

==Original labels categorized==

{| class="wikitable sortable labelpage labelpagetable" border="1"
! integer_label
! text_label
! color
! notes
! anatomic region
! anatomic region modifier
! primary anatomic structure
! primary anatomic structure modifier
! segmented property category - CID 7150
! segmented property type
! segmented property type modifier
|-
|0
|background
|style="background:rgb(0,0,0);color:white"|rgba(0,0,0,0)
|
|
|
|
|
|
|
|
|-
|1
|tissue
|style="background:rgb(128,174,128)"|rgb(128,174,128)
| Default label for bodily tissues
|
|
|
|
| (T-D0050,SRT,"Tissue")
|
|
|-
|2
|bone
|style="background:rgb(241,214,145)"|rgb(241,214,145)
|
|
|
|
|
| (T-D0050,SRT,"Tissue")
| (T-D016E,SRT,"Bone")
|
|-
|3
|skin
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|4
|connective tissue
|style="background:rgb(111,184,210)"|rgb(111,184,210)
|
|
|
|
|
|
|
|
|-
|5
|blood
|style="background:rgb(216,101,79)"|rgb(216,101,79)
|
|
|
|
|
|
|
|
|-
|6
|organ
|style="background:rgb(221,130,101)"|rgb(221,130,101)
|
|
|
|
|
|
|
|
|-
|7
|mass
|style="background:rgb(144,238,144)"|rgb(144,238,144)
| Could be tumor or other lesion
|
|
|
|
| (M-01000,SRT,"Morphologically Altered Structure")
| (M-03000,SRT,"Mass") - CID 7159++
|
|-
|8
|muscle
|style="background:rgb(192,104,88)"|rgb(192,104,88)
|
|
|
|
|
| (T-D0050,SRT,"Tissue")
| (T-13001,SRT,"Muscle") - CID 7160 (should refactor)
|
|-
|9
|foreign object
|style="background:rgb(220,245,20)"|rgb(220,245,20)
| Implants, surical instruments, table...
|
|
|
|
| (A-00004,SRT,"Physical Object")
| (M-30400,SRT,"Foreign Body")
|
|-
|10
|waste
|style="background:rgb(78,63,0)"|rgb(78,63,0)
|
|
|
|
|
|
|
|
|-
|11
|teeth
|style="background:rgb(255,250,220)"|rgb(255,250,220)
|
|
|
|
|
|
|
|
|-
|12
|fat
|style="background:rgb(230,220,70)"|rgb(230,220,70)
|
|
|
|
|
|
|
|
|-
|13
|gray matter
|style="background:rgb(200,200,235)"|rgb(200,200,235)
| cf. 39 and 116
|
|
|
|
| (T-D0050,SRT,"Tissue")
| (T-A0096,SRT,"Gray Matter") - CID 7153 Edited
|
|-
|14
|white matter
|style="background:rgb(250,250,210)"|rgb(250,250,210)
|
|
|
|
|
| (T-D0050,SRT,"Tissue")
| (T-A0095,SRT,"White Matter") - CID 7153 Edited
|
|-
|15
|nerve
|style="background:rgb(244,214,49)"|rgb(244,214,49)
|
|
|
|
|
|
|
|
|-
|16
|vein
|style="background:rgb(0,151,206)"|rgb(0,151,206)
|
|
|
|
|
|
|
|
|-
|17
|artery
|style="background:rgb(216,101,79)"|rgb(216,101,79)
|
|
|
|
|
|
|
|
|-
|18
|capillary
|style="background:rgb(183,156,220)"|rgb(183,156,220)
|
|
|
|
|
|
|
|
|-
|19
|ligament
|style="background:rgb(183,214,211)"|rgb(183,214,211)
|
|
|
|
|
|
|
|
|-
|20
|tendon
|style="background:rgb(152,189,207)"|rgb(152,189,207)
|
|
|
|
|
|
|
|
|-
|21
|cartilage
|style="background:rgb(111,184,210)"|rgb(111,184,210)
|
|
|
|
|
|
|
|
|-
|22
|meniscus
|style="background:rgb(178,212,242)"|rgb(178,212,242)
|
|
|
|
|
|
|
|
|-
|23
|lymph node
|style="background:rgb(68,172,100)"|rgb(68,172,100)
|
|
|
|
|
|
|
|
|-
|24
|lymphatic vessel
|style="background:rgb(111,197,131)"|rgb(111,197,131)
|
|
|
|
|
|
|
|
|-
|25
|cerebro-spinal fluid
|style="background:rgb(85,188,255)"|rgb(85,188,255)
| cf. 106
|
|
|
|
| (T-D0050,SRT,"Tissue")
| (T-A1000,SRT,"Cerebrospinal Fluid") - CID 7153
|
|-
|26
|bile
|style="background:rgb(0,145,30)"|rgb(0,145,30)
|
|
|
|
|
|
|
|
|-
|27
|urine
|style="background:rgb(214,230,130)"|rgb(214,230,130)
|
|
|
|
|
|
|
|
|-
|28
|feces
|style="background:rgb(78,63,0)"|rgb(78,63,0)
|
|
|
|
|
|
|
|
|-
|29
|gas
|style="background:rgb(218,255,255)"|rgb(218,255,255)
|
|
|
|
|
|
|
|
|-
|30
|fluid
|style="background:rgb(170,250,250)"|rgb(170,250,250)
|
|
|
|
|
|
|
|
|-
|31
|edema
|style="background:rgb(140,224,228)"|rgb(140,224,228)
|
|
|
|
|
| (M-01000,SRT,"Morphologically Altered Structure")
| (M-36300,SRT,"Edema") - CID 7159++
|
|-
|32
|bleeding
|style="background:rgb(188,65,28)"|rgb(188,65,28)
|
|
|
|
|
| (M-01000,SRT,"Morphologically Altered Structure")
| (M-37000,SRT,"Hemorrhage") - CID 7159++
|
|-
|33
|necrosis
|style="background:rgb(216,191,216)"|rgb(216,191,216)
|
|
|
|
|
| (M-01000,SRT,"Morphologically Altered Structure")
| (M-54000,SRT,"Necrosis") - CID 7159
|
|-
|34
|clot
|style="background:rgb(145,60,66)"|rgb(145,60,66)
|
|
|
|
|
| (M-01000,SRT,"Morphologically Altered Structure")
| (M-35000,SRT,"Blood Clot") - CID 7159++
|
|-
|35
|embolism
|style="background:rgb(150,98,83)"|rgb(150,98,83)
|
|
|
|
|
| (M-01000,SRT,"Morphologically Altered Structure")
| (M-35300,SRT,"Embolus") - CID 7159++
|
|-
|36
|head
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|37
|central nervous system
|style="background:rgb(244,214,49)"|rgb(244,214,49)
|
|
|
|
|
|
|
|
|-
|38
|brain
|style="background:rgb(250,250,225)"|rgb(250,250,225)
|
|
|
|
|
| ? tissue or structure
| (T-A0100,SRT,"Brain") - CID 7153++
|
|-
|39
|gray matter of brain
|style="background:rgb(200,200,215)"|rgb(200,200,215)
| cf. 13 and 116
|
|
|
|
| (T-D0050,SRT,"Tissue")
| (T-A2020,SRT,"Cerebral Gray Matter") - CID 7153 Edited
|
|-
|40
|telencephalon
|style="background:rgb(68,131,98)"|rgb(68,131,98)
|
|
|
|
|
|
|
|
|-
|41
|cerebral cortex
|style="background:rgb(128,174,128)"|rgb(128,174,128)
|
|
|
|
|
|
|
|
|-
|42
|right frontal lobe
|style="background:rgb(83,146,164)"|rgb(83,146,164)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A2218,SRT,"Frontal Lobe") - CID 7153++
| (G-A100,SRT,"Right")
|-
|43
|left frontal lobe
|style="background:rgb(83,146,164)"|rgb(83,146,164)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A2218,SRT,"Frontal Lobe") - CID 7153++
| (G-A101,SRT,"Left")
|-
|44
|right temporal lobe
|style="background:rgb(162,115,105)"|rgb(162,115,105)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A2513,SRT,"Temporal Lobe") - CID 7153++
| (G-A100,SRT,"Right")
|-
|45
|left temporal lobe
|style="background:rgb(162,115,105)"|rgb(162,115,105)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A2513,SRT,"Temporal Lobe") - CID 7153++
| (G-A101,SRT,"Left")
|-
|46
|right parietal lobe
|style="background:rgb(141,93,137)"|rgb(141,93,137)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A230F,SRT,"Parietal Lobe") - CID 7153++
| (G-A100,SRT,"Right")
|-
|47
|left parietal lobe
|style="background:rgb(141,93,137)"|rgb(141,93,137)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A230F,SRT,"Parietal Lobe") - CID 7153++
| (G-A101,SRT,"Left")
|-
|48
|right occipital lobe
|style="background:rgb(182,166,110)"|rgb(182,166,110)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A240F,SRT,"Occipital Lobe") - CID 7153++
| (G-A100,SRT,"Right")
|-
|49
|left occipital lobe
|style="background:rgb(182,166,110)"|rgb(182,166,110)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A240F,SRT,"Occipital Lobe") - CID 7153++
| (G-A101,SRT,"Left")
|-
|50
|right insular lobe
|style="background:rgb(188,135,166)"|rgb(188,135,166)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A2615,SRT,"Insula") - CID 7153++
| (G-A100,SRT,"Right")
|-
|51
|left insular lobe
|style="background:rgb(188,135,166)"|rgb(188,135,166)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A2615,SRT,"Insula") - CID 7153++
| (G-A101,SRT,"Left")
|-
|52
|right limbic lobe
|style="background:rgb(154,150,201)"|rgb(154,150,201)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A0036,SRT,"Limbic Lobe") - CID 7153++
| (G-A100,SRT,"Right")
|-
|53
|left limbic lobe
|style="background:rgb(154,150,201)"|rgb(154,150,201)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A0036,SRT,"Limbic Lobe") - CID 7153++
| (G-A101,SRT,"Left")
|-
|54
|right striatum
|style="background:rgb(177,140,190)"|rgb(177,140,190)
|
|
|
|
|
|
|
|
|-
|55
|left striatum
|style="background:rgb(177,140,190)"|rgb(177,140,190)
|
|
|
|
|
|
|
|
|-
|56
|right caudate nucleus
|style="background:rgb(30,111,85)"|rgb(30,111,85)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A3201,SRT,"Caudate Nucleus") - CID 7153++
| (G-A100,SRT,"Right")
|-
|57
|left caudate nucleus
|style="background:rgb(30,111,85)"|rgb(30,111,85)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A3201,SRT,"Caudate Nucleus") - CID 7153++
| (G-A101,SRT,"Left")
|-
|58
|right putamen
|style="background:rgb(210,157,166)"|rgb(210,157,166)
|
|
|
|
|
|
|
|
|-
|59
|left putamen
|style="background:rgb(210,157,166)"|rgb(210,157,166)
|
|
|
|
|
|
|
|
|-
|60
|right pallidum
|style="background:rgb(48,129,126)"|rgb(48,129,126)
|
|
|
|
|
|
|
|
|-
|61
|left pallidum
|style="background:rgb(48,129,126)"|rgb(48,129,126)
|
|
|
|
|
|
|
|
|-
|62
|right amygdaloid complex
|style="background:rgb(98,153,112)"|rgb(98,153,112)
|
|
|
|
|
|
|
|
|-
|63
|left amygdaloid complex
|style="background:rgb(98,153,112)"|rgb(98,153,112)
|
|
|
|
|
|
|
|
|-
|64
|diencephalon
|style="background:rgb(69,110,53)"|rgb(69,110,53)
|
|
|
|
|
|
|
|
|-
|65
|thalamus
|style="background:rgb(166,113,137)"|rgb(166,113,137)
|
|
|
|
|
|
|
|
|-
|66
|right thalamus
|style="background:rgb(122,101,38)"|rgb(122,101,38)
|
|
|
|
|
|
|
|
|-
|67
|left thalamus
|style="background:rgb(122,101,38)"|rgb(122,101,38)
|
|
|
|
|
|
|
|
|-
|68
|pineal gland
|style="background:rgb(253,135,192)"|rgb(253,135,192)
|
|
|
|
|
|
|
|
|-
|69
|midbrain
|style="background:rgb(145,92,109)"|rgb(145,92,109)
|
|
|
|
|
|
|
|
|-
|70
|substantia nigra
|style="background:rgb(46,101,131)"|rgb(46,101,131)
|
|
|
|
|
|
|
|
|-
|71
|right substantia nigra
|style="background:rgb(0,108,112)"|rgb(0,108,112)
|
|
|
|
|
|
|
|
|-
|72
|left substantia nigra
|style="background:rgb(0,108,112)"|rgb(0,108,112)
|
|
|
|
|
|
|
|
|-
|73
|cerebral white matter
|style="background:rgb(250,250,225)"|rgb(250,250,225)
|
|
|
|
|
|
|
|
|-
|74
|right superior longitudinal fasciculus
|style="background:rgb(127,150,88)"|rgb(127,150,88)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A2820,SRT,"Superior Longitudinal Fasciculus") - CID 7153++
| (G-A100,SRT,"Right")
|-
|75
|left superior longitudinal fasciculus
|style="background:rgb(127,150,88)"|rgb(127,150,88)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A2820,SRT,"Superior Longitudinal Fasciculus") - CID 7153++
| (G-A101,SRT,"Left")
|-
|76
|right inferior longitudinal fasciculus
|style="background:rgb(159,116,163)"|rgb(159,116,163)
|
|
|
|
|
|
|
|
|-
|77
|left inferior longitudinal fasciculus
|style="background:rgb(159,116,163)"|rgb(159,116,163)
|
|
|
|
|
|
|
|
|-
|78
|right arcuate fasciculus
|style="background:rgb(125,102,154)"|rgb(125,102,154)
| DC: SNOMED needs fixing - specifies arcuate as synonym (ratehr than part of) superior longitudinal fasciculus
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (276650,FMA,"Arcuate Fasciculus") - CID 7153++
| (G-A100,SRT,"Right")
|-
|79
|left arcuate fasciculus
|style="background:rgb(125,102,154)"|rgb(125,102,154)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (276650,FMA,"Arcuate Fasciculus") - CID 7153++
| (G-A101,SRT,"Left")
|-
|80
|right uncinate fasciculus
|style="background:rgb(106,174,155)"|rgb(106,174,155)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A2831,SRT,"Uncinate Fasciculus") - CID 7153++
| (G-A100,SRT,"Right")
|-
|81
|left uncinate fasciculus
|style="background:rgb(106,174,155)"|rgb(106,174,155)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A2831,SRT,"Uncinate Fasciculus") - CID 7153++
| (G-A101,SRT,"Left")
|-
|82
|right cingulum bundle
|style="background:rgb(154,146,83)"|rgb(154,146,83)
|
|
|
|
|
|
|
|
|-
|83
|left cingulum bundle
|style="background:rgb(154,146,83)"|rgb(154,146,83)
|
|
|
|
|
|
|
|
|-
|84
|projection fibers
|style="background:rgb(126,126,55)"|rgb(126,126,55)
|
|
|
|
|
|
|
|
|-
|85
|right corticospinal tract
|style="background:rgb(201,160,133)"|rgb(201,160,133)
|
|
|
|
|
|
|
|
|-
|86
|left corticospinal tract
|style="background:rgb(201,160,133)"|rgb(201,160,133)
|
|
|
|
|
|
|
|
|-
|87
|right optic radiation
|style="background:rgb(78,152,141)"|rgb(78,152,141)
|
|
|
|
|
|
|
|
|-
|88
|left optic radiation
|style="background:rgb(78,152,141)"|rgb(78,152,141)
|
|
|
|
|
|
|
|
|-
|89
|right medial lemniscus
|style="background:rgb(174,140,103)"|rgb(174,140,103)
|
|
|
|
|
|
|
|
|-
|90
|left medial lemniscus
|style="background:rgb(174,140,103)"|rgb(174,140,103)
|
|
|
|
|
|
|
|
|-
|91
|right superior cerebellar peduncle
|style="background:rgb(139,126,177)"|rgb(139,126,177)
|
|
|
|
|
|
|
|
|-
|92
|left superior cerebellar peduncle
|style="background:rgb(139,126,177)"|rgb(139,126,177)
|
|
|
|
|
|
|
|
|-
|93
|right middle cerebellar peduncle
|style="background:rgb(148,120,72)"|rgb(148,120,72)
|
|
|
|
|
|
|
|
|-
|94
|left middle cerebellar peduncle
|style="background:rgb(148,120,72)"|rgb(148,120,72)
|
|
|
|
|
|
|
|
|-
|95
|right inferior cerebellar peduncle
|style="background:rgb(186,135,135)"|rgb(186,135,135)
|
|
|
|
|
|
|
|
|-
|96
|left inferior cerebellar peduncle
|style="background:rgb(186,135,135)"|rgb(186,135,135)
|
|
|
|
|
|
|
|
|-
|97
|optic chiasm
|style="background:rgb(99,106,24)"|rgb(99,106,24)
|
|
|
|
|
|
|
|
|-
|98
|right optic tract
|style="background:rgb(156,171,108)"|rgb(156,171,108)
|
|
|
|
|
|
|
|
|-
|99
|left optic tract
|style="background:rgb(156,171,108)"|rgb(156,171,108)
|
|
|
|
|
|
|
|
|-
|100
|right fornix
|style="background:rgb(64,123,147)"|rgb(64,123,147)
|
|
|
|
|
|
|
|
|-
|101
|left fornix
|style="background:rgb(64,123,147)"|rgb(64,123,147)
|
|
|
|
|
|
|
|
|-
|102
|commissural fibers
|style="background:rgb(138,95,74)"|rgb(138,95,74)
|
|
|
|
|
|
|
|
|-
|103
|corpus callosum
|style="background:rgb(97,113,158)"|rgb(97,113,158)
|
|
|
|
|
|
|
|
|-
|104
|posterior commissure
|style="background:rgb(126,161,197)"|rgb(126,161,197)
|
|
|
|
|
|
|
|
|-
|105
|cerebellar white matter
|style="background:rgb(194,195,164)"|rgb(194,195,164)
|
|
|
|
|
|
| (T-A6080,SRT,"Cerebellar White Matter") - CID 7153++
|
|-
|106
|CSF space
|style="background:rgb(85,188,255)"|rgb(85,188,255)
| DC: cf. 25; is this one supposed to be brain-specific? assume so
|
|
|
|
|
| (T-A0109,SRT,"Brain Cerebrospinal Fluid Pathway") - CID 7153++
|
|-
|107
|ventricles of brain
|style="background:rgb(88,106,215)"|rgb(88,106,215)
|
|
|
|
|
|
|
|
|-
|108
|right lateral ventricle
|style="background:rgb(88,106,215)"|rgb(88,106,215)
|
|
|
|
|
|
|
|
|-
|109
|left lateral ventricle
|style="background:rgb(88,106,215)"|rgb(88,106,215)
|
|
|
|
|
|
|
|
|-
|110
|right third ventricle
|style="background:rgb(88,106,215)"|rgb(88,106,215)
|
|
|
|
|
|
|
|
|-
|111
|left third ventricle
|style="background:rgb(88,106,215)"|rgb(88,106,215)
|
|
|
|
|
|
|
|
|-
|112
|cerebral aqueduct
|style="background:rgb(88,106,215)"|rgb(88,106,215)
|
|
|
|
|
|
|
|
|-
|113
|fourth ventricle
|style="background:rgb(88,106,215)"|rgb(88,106,215)
|
|
|
|
|
|
|
|
|-
|114
|subarachnoid space
|style="background:rgb(88,106,215)"|rgb(88,106,215)
|
|
|
|
|
|
|
|
|-
|115
|spinal cord
|style="background:rgb(244,214,49)"|rgb(244,214,49)
|
|
|
|
|
|
|
|
|-
|116
|gray matter of spinal cord
|style="background:rgb(200,200,215)"|rgb(200,200,215)
| cf. 7 and 39
|
|
|
|
|
| (T-A7020,SRT,"Spinal Cord Gray Matter") - CID 7153++
|
|-
|117
|white matter of spinal cord
|style="background:rgb(250,250,225)"|rgb(250,250,225)
|
|
|
|
|
|
| (T-A7070,SRT,"Spinal Cord White Matter") - CID 7153++
|
|-
|118
|endocrine system of brain
|style="background:rgb(82,174,128)"|rgb(82,174,128)
|
|
|
|
|
|
|
|
|-
|119
|pituitary gland
|style="background:rgb(57,157,110)"|rgb(57,157,110)
|
|
|
|
|
|
|
|
|-
|120
|adenohypophysis
|style="background:rgb(60,143,83)"|rgb(60,143,83)
|
|
|
|
|
|
|
|
|-
|121
|neurohypophysis
|style="background:rgb(92,162,109)"|rgb(92,162,109)
|
|
|
|
|
|
|
|
|-
|122
|meninges
|style="background:rgb(255,244,209)"|rgb(255,244,209)
|
|
|
|
|
|
| (T-A1110,SRT,"Meninges") - CID 7153
|
|-
|123
|dura mater
|style="background:rgb(255,244,209)"|rgb(255,244,209)
|
|
|
|
|
|
|
|
|-
|124
|arachnoid
|style="background:rgb(255,244,209)"|rgb(255,244,209)
|
|
|
|
|
|
|
|
|-
|125
|pia mater
|style="background:rgb(255,244,209)"|rgb(255,244,209)
|
|
|
|
|
|
|
|
|-
|126
|muscles of head
|style="background:rgb(201,121,77)"|rgb(201,121,77)
|
|
|
|
|
|
|
|
|-
|127
|salivary glands
|style="background:rgb(70,163,117)"|rgb(70,163,117)
|
|
|
|
|
|
|
|
|-
|128
|lips
|style="background:rgb(188,91,95)"|rgb(188,91,95)
|
|
|
|
|
|
|
|
|-
|129
|nose
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|130
|tongue
|style="background:rgb(166,84,94)"|rgb(166,84,94)
|
|
|
|
|
|
|
|
|-
|131
|soft palate
|style="background:rgb(182,105,107)"|rgb(182,105,107)
|
|
|
|
|
|
|
|
|-
|132
|right inner ear
|style="background:rgb(229,147,118)"|rgb(229,147,118)
|
|
|
|
|
|
|
|
|-
|133
|left inner ear
|style="background:rgb(229,147,118)"|rgb(229,147,118)
|
|
|
|
|
|
|
|
|-
|134
|right external ear
|style="background:rgb(174,122,90)"|rgb(174,122,90)
|
|
|
|
|
|
|
|
|-
|135
|left external ear
|style="background:rgb(174,122,90)"|rgb(174,122,90)
|
|
|
|
|
|
|
|
|-
|136
|right middle ear
|style="background:rgb(201,112,73)"|rgb(201,112,73)
|
|
|
|
|
|
|
|
|-
|137
|left middle ear
|style="background:rgb(201,112,73)"|rgb(201,112,73)
|
|
|
|
|
|
|
|
|-
|138
|right eyeball
|style="background:rgb(194,142,0)"|rgb(194,142,0)
|
|
|
|
|
|
|
|
|-
|139
|left eyeball
|style="background:rgb(194,142,0)"|rgb(194,142,0)
|
|
|
|
|
|
|
|
|-
|140
|skull
|style="background:rgb(241,213,144)"|rgb(241,213,144)
|
|
|
|
|
|
| (T-11100,SRT,"Skull") - CID 7153
|
|-
|141
|right frontal bone
|style="background:rgb(203,179,77)"|rgb(203,179,77)
|
|
|
|
|
|
|
|
|-
|142
|left frontal bone
|style="background:rgb(203,179,77)"|rgb(203,179,77)
|
|
|
|
|
|
|
|
|-
|143
|right parietal bone
|style="background:rgb(229,204,109)"|rgb(229,204,109)
|
|
|
|
|
|
|
|
|-
|144
|left parietal bone
|style="background:rgb(229,204,109)"|rgb(229,204,109)
|
|
|
|
|
|
|
|
|-
|145
|right temporal bone
|style="background:rgb(255,243,152)"|rgb(255,243,152)
|
|
|
|
|
|
|
|
|-
|146
|left temporal bone
|style="background:rgb(255,243,152)"|rgb(255,243,152)
|
|
|
|
|
|
|
|
|-
|147
|right sphenoid bone
|style="background:rgb(209,185,85)"|rgb(209,185,85)
|
|
|
|
|
|
|
|
|-
|148
|left sphenoid bone
|style="background:rgb(209,185,85)"|rgb(209,185,85)
|
|
|
|
|
|
|
|
|-
|149
|right ethmoid bone
|style="background:rgb(248,223,131)"|rgb(248,223,131)
|
|
|
|
|
|
|
|
|-
|150
|left ethmoid bone
|style="background:rgb(248,223,131)"|rgb(248,223,131)
|
|
|
|
|
|
|
|
|-
|151
|occipital bone
|style="background:rgb(255,230,138)"|rgb(255,230,138)
|
|
|
|
|
|
|
|
|-
|152
|maxilla
|style="background:rgb(196,172,68)"|rgb(196,172,68)
|
|
|
|
|
|
|
|
|-
|153
|right zygomatic bone
|style="background:rgb(255,255,167)"|rgb(255,255,167)
| DC: ? use more general (T-111BE,SRT,"Zygoma"); also, where is the left one ??
| (T-11167,SRT,"Zygomatic arch") - CID 4028
| (G-A100,SRT,"Right")
|
|
|
|
|
|-
|154
|right lacrimal bone
|style="background:rgb(255,250,160)"|rgb(255,250,160)
|
|
|
|
|
|
|
|
|-
|155
|vomer bone
|style="background:rgb(255,237,145)"|rgb(255,237,145)
|
|
|
|
|
|
|
|
|-
|156
|right palatine bone
|style="background:rgb(242,217,123)"|rgb(242,217,123)
|
| (T-111A8,SRT,"Palatine Bone")
| (G-A100,SRT,"Right")
|
|
|
|
|
|-
|157
|left palatine bone
|style="background:rgb(242,217,123)"|rgb(242,217,123)
|
| (T-111A8,SRT,"Palatine Bone")
| (G-A101,SRT,"Left")
|
|
|
|
|
|-
|158
|mandible
|style="background:rgb(222,198,101)"|rgb(222,198,101)
|
|
|
|
|
|
|
|
|-
|159
|neck
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|160
|muscles of neck
|style="background:rgb(213,124,109)"|rgb(213,124,109)
|
|
|
|
|
|
|
|
|-
|161
|pharynx
|style="background:rgb(184,105,108)"|rgb(184,105,108)
|
|
|
|
|
|
|
|
|-
|162
|larynx
|style="background:rgb(150,208,243)"|rgb(150,208,243)
|
|
|
|
|
|
|
|
|-
|163
|thyroid gland
|style="background:rgb(62,162,114)"|rgb(62,162,114)
|
|
|
|
|
|
|
|
|-
|164
|right parathyroid glands
|style="background:rgb(62,162,114)"|rgb(62,162,114)
|
|
|
|
|
|
|
|
|-
|165
|left parathyroid glands
|style="background:rgb(62,162,114)"|rgb(62,162,114)
|
|
|
|
|
|
|
|
|-
|166
|skeleton of neck
|style="background:rgb(242,206,142)"|rgb(242,206,142)
|
|
|
|
|
|
|
|
|-
|167
|hyoid bone
|style="background:rgb(250,210,139)"|rgb(250,210,139)
|
|
|
|
|
|
|
|
|-
|168
|cervical vertebral column
|style="background:rgb(255,255,207)"|rgb(255,255,207)
|
|
|
|
|
|
|
|
|-
|169
|thorax
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|170
|trachea
|style="background:rgb(182,228,255)"|rgb(182,228,255)
|
|
|
|
|
|
|
|
|-
|171
|bronchi
|style="background:rgb(175,216,244)"|rgb(175,216,244)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-26000,SRT,"Bronchi") - CID 7155
|
|-
|172
|right lung
|style="background:rgb(197,165,145)"|rgb(197,165,145)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-28000,SRT,"Lung") - CID 7155
| (G-A100,SRT,"Right")
|-
|173
|left lung
|style="background:rgb(197,165,145)"|rgb(197,165,145)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-28000,SRT,"Lung") - CID 7155
| (G-A101,SRT,"Left")
|-
|174
|superior lobe of right lung
|style="background:rgb(172,138,115)"|rgb(172,138,115)
|
|
|
|
|
|
|
|
|-
|175
|superior lobe of left lung
|style="background:rgb(172,138,115)"|rgb(172,138,115)
|
|
|
|
|
|
|
|
|-
|176
|middle lobe of right lung
|style="background:rgb(202,164,140)"|rgb(202,164,140)
|
|
|
|
|
|
|
|
|-
|177
|inferior lobe of right lung
|style="background:rgb(224,186,162)"|rgb(224,186,162)
|
|
|
|
|
|
|
|
|-
|178
|inferior lobe of left lung
|style="background:rgb(224,186,162)"|rgb(224,186,162)
|
|
|
|
|
|
|
|
|-
|179
|pleura
|style="background:rgb(255,245,217)"|rgb(255,245,217)
|
|
|
|
|
|
|
|
|-
|180
|heart
|style="background:rgb(206,110,84)"|rgb(206,110,84)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-32000,SRT,"Heart") - CID 7152
|
|-
|181
|right atrium
|style="background:rgb(210,115,89)"|rgb(210,115,89)
|
|
|
|
|
|
|
|
|-
|182
|left atrium
|style="background:rgb(203,108,81)"|rgb(203,108,81)
|
|
|
|
|
|
|
|
|-
|183
|atrial septum
|style="background:rgb(233,138,112)"|rgb(233,138,112)
|
|
|
|
|
|
|
|
|-
|184
|ventricular septum
|style="background:rgb(195,100,73)"|rgb(195,100,73)
|
|
|
|
|
|
|
|
|-
|185
|right ventricle of heart
|style="background:rgb(181,85,57)"|rgb(181,85,57)
| DC: SRT code is precordinated; no need for laterality modifier
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-32500,SRT,"Right Ventricle") - CID 7152
|
|-
|186
|left ventricle of heart
|style="background:rgb(152,55,13)"|rgb(152,55,13)
| DC: SRT code is precordinated; no need for laterality modifier
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-32600,SRT,"Left Ventricle") - CID 7152
|
|-
|187
|mitral valve
|style="background:rgb(159,63,27)"|rgb(159,63,27)
|
|
|
|
|
|
|
|
|-
|188
|tricuspid valve
|style="background:rgb(166,70,38)"|rgb(166,70,38)
|
|
|
|
|
|
|
|
|-
|189
|aortic valve
|style="background:rgb(218,123,97)"|rgb(218,123,97)
|
|
|
|
|
|
|
|
|-
|190
|pulmonary valve
|style="background:rgb(225,130,104)"|rgb(225,130,104)
|
|
|
|
|
|
|
|
|-
|191
|aorta
|style="background:rgb(224,97,76)"|rgb(224,97,76)
| DC: ? need specific parts (ascending, arch, descending thoracic, abdominal)
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-42000,SRT,"Aorta") - CID 7152
|
|-
|192
|pericardium
|style="background:rgb(255,244,209)"|rgb(255,244,209)
|
|
|
|
|
|
|
|
|-
|193
|pericardial cavity
|style="background:rgb(184,122,154)"|rgb(184,122,154)
|
|
|
|
|
|
|
|
|-
|194
|esophagus
|style="background:rgb(211,171,143)"|rgb(211,171,143)
|
|
|
|
|
|
|
|
|-
|195
|thymus
|style="background:rgb(47,150,103)"|rgb(47,150,103)
|
|
|
|
|
|
|
|
|-
|196
|mediastinum
|style="background:rgb(255,244,209)"|rgb(255,244,209)
|
|
|
|
|
|
|
|
|-
|197
|skin of thoracic wall
|style="background:rgb(173,121,88)"|rgb(173,121,88)
|
|
|
|
|
|
|
|
|-
|198
|muscles of thoracic wall
|style="background:rgb(188,95,76)"|rgb(188,95,76)
|
|
|
|
|
|
|
|
|-
|199
|skeleton of thorax
|style="background:rgb(255,239,172)"|rgb(255,239,172)
|
|
|
|
|
|
|
|
|-
|200
|thoracic vertebral column
|style="background:rgb(226,202,134)"|rgb(226,202,134)
|
|
|
|
|
|
|
|
|-
|201
|ribs
|style="background:rgb(253,232,158)"|rgb(253,232,158)
|
|
|
|
|
|
|
|
|-
|202
|sternum
|style="background:rgb(244,217,154)"|rgb(244,217,154)
|
|
|
|
|
|
|
|
|-
|203
|right clavicle
|style="background:rgb(205,179,108)"|rgb(205,179,108)
|
|
|
|
|
|
|
|
|-
|204
|left clavicle
|style="background:rgb(205,179,108)"|rgb(205,179,108)
|
|
|
|
|
|
|
|
|-
|205
|abdominal cavity
|style="background:rgb(186,124,161)"|rgb(186,124,161)
|
|
|
|
|
|
|
|
|-
|206
|abdomen
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|207
|peritoneum
|style="background:rgb(255,255,220)"|rgb(255,255,220)
|
|
|
|
|
|
|
|
|-
|208
|omentum
|style="background:rgb(234,234,194)"|rgb(234,234,194)
|
|
|
|
|
|
|
|
|-
|209
|peritoneal cavity
|style="background:rgb(204,142,178)"|rgb(204,142,178)
|
|
|
|
|
|
|
|
|-
|210
|retroperitoneal space
|style="background:rgb(180,119,153)"|rgb(180,119,153)
|
|
|
|
|
|
|
|
|-
|211
|stomach
|style="background:rgb(216,132,105)"|rgb(216,132,105)
|
|
|
|
|
|
|
|
|-
|212
|duodenum
|style="background:rgb(255,253,229)"|rgb(255,253,229)
|
|
|
|
|
|
|
|
|-
|213
|small bowel
|style="background:rgb(205,167,142)"|rgb(205,167,142)
|
|
|
|
|
|
|
|
|-
|214
|colon
|style="background:rgb(204,168,143)"|rgb(204,168,143)
|
|
|
|
|
|
|
|
|-
|215
|anus
|style="background:rgb(255,224,199)"|rgb(255,224,199)
|
|
|
|
|
|
|
|
|-
|216
|liver
|style="background:rgb(221,130,101)"|rgb(221,130,101)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-62000,SRT,"Liver") - CID 7154
|
|-
|217
|biliary tree
|style="background:rgb(0,145,30)"|rgb(0,145,30)
|
|
|
|
|
|
|
|
|-
|218
|gallbladder
|style="background:rgb(139,150,98)"|rgb(139,150,98)
|
|
|
|
|
|
|
|
|-
|219
|pancreas
|style="background:rgb(249,180,111)"|rgb(249,180,111)
|
|
|
|
|
|
|
|
|-
|220
|spleen
|style="background:rgb(157,108,162)"|rgb(157,108,162)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-C3000,SRT,"Spleen) - CID 7154
|
|-
|221
|urinary system
|style="background:rgb(203,136,116)"|rgb(203,136,116)
|
|
|
|
|
|
|
|
|-
|222
|right kidney
|style="background:rgb(185,102,83)"|rgb(185,102,83)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-71000,SRT,"Kidney") - CID 7154
| (G-A100,SRT,"Right")
|-
|223
|left kidney
|style="background:rgb(185,102,83)"|rgb(185,102,83)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-71000,SRT,"Kidney") - CID 7154
| (G-A101,SRT,"Left")
|-
|224
|right ureter
|style="background:rgb(247,182,164)"|rgb(247,182,164)
|
|
|
|
|
|
|
|
|-
|225
|left ureter
|style="background:rgb(247,182,164)"|rgb(247,182,164)
|
|
|
|
|
|
|
|
|-
|226
|urinary bladder
|style="background:rgb(222,154,132)"|rgb(222,154,132)
|
|
|
|
|
|
|
|
|-
|227
|urethra
|style="background:rgb(124,186,223)"|rgb(124,186,223)
|
|
|
|
|
|
|
|
|-
|228
|right adrenal gland
|style="background:rgb(249,186,150)"|rgb(249,186,150)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-B3000,SRT,"Adrenal Gland")
| (G-A100,SRT,"Right")
|-
|229
|left adrenal gland
|style="background:rgb(249,186,150)"|rgb(249,186,150)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-B3000,SRT,"Adrenal Gland")
| (G-A101,SRT,"Left")
|-
|230
|female internal genitalia
|style="background:rgb(244,170,147)"|rgb(244,170,147)
|
|
|
|
|
|
|
|
|-
|231
|uterus
|style="background:rgb(255,181,158)"|rgb(255,181,158)
|
|
|
|
|
|
|
|
|-
|232
|right fallopian tube
|style="background:rgb(255,190,165)"|rgb(255,190,165)
|
|
|
|
|
|
|
|
|-
|233
|left fallopian tube
|style="background:rgb(227,153,130)"|rgb(227,153,130)
|
|
|
|
|
|
|
|
|-
|234
|right ovary
|style="background:rgb(213,141,113)"|rgb(213,141,113)
|
|
|
|
|
|
|
|
|-
|235
|left ovary
|style="background:rgb(213,141,113)"|rgb(213,141,113)
|
|
|
|
|
|
|
|
|-
|236
|vagina
|style="background:rgb(193,123,103)"|rgb(193,123,103)
|
|
|
|
|
|
|
|
|-
|237
|male internal genitalia
|style="background:rgb(216,146,127)"|rgb(216,146,127)
|
|
|
|
|
|
|
|
|-
|238
|prostate
|style="background:rgb(230,158,140)"|rgb(230,158,140)
|
|
|
|
|
|
|
|
|-
|239
|right seminal vesicle
|style="background:rgb(245,172,147)"|rgb(245,172,147)
|
|
|
|
|
|
|
|
|-
|240
|left seminal vesicle
|style="background:rgb(245,172,147)"|rgb(245,172,147)
|
|
|
|
|
|
|
|
|-
|241
|right deferent duct
|style="background:rgb(241,172,151)"|rgb(241,172,151)
|
|
|
|
|
|
|
|
|-
|242
|left deferent duct
|style="background:rgb(241,172,151)"|rgb(241,172,151)
|
|
|
|
|
|
|
|
|-
|243
|skin of abdominal wall
|style="background:rgb(177,124,92)"|rgb(177,124,92)
|
|
|
|
|
|
|
|
|-
|244
|muscles of abdominal wall
|style="background:rgb(171,85,68)"|rgb(171,85,68)
|
|
|
|
|
|
|
|
|-
|245
|skeleton of abdomen
|style="background:rgb(217,198,131)"|rgb(217,198,131)
|
|
|
|
|
|
|
|
|-
|246
|lumbar vertebral column
|style="background:rgb(212,188,102)"|rgb(212,188,102)
|
|
|
|
|
|
|
|
|-
|247
|female external genitalia
|style="background:rgb(185,135,134)"|rgb(185,135,134)
|
|
|
|
|
|
|
|
|-
|248
|male external genitalia
|style="background:rgb(185,135,134)"|rgb(185,135,134)
|
|
|
|
|
|
|
|
|-
|249
|skeleton of upper limb
|style="background:rgb(198,175,125)"|rgb(198,175,125)
|
|
|
|
|
|
|
|
|-
|250
|muscles of upper limb
|style="background:rgb(194,98,79)"|rgb(194,98,79)
|
|
|
|
|
|
|
|
|-
|251
|right upper limb
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|252
|left upper limb
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|253
|right shoulder
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|254
|left shoulder
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|255
|right arm
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|256
|left arm
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|257
|right elbow
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|258
|left elbow
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|259
|right forearm
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|260
|left forearm
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|261
|right wrist
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|262
|left wrist
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|263
|right hand
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|264
|left hand
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|265
|skeleton of lower limb
|style="background:rgb(255,238,170)"|rgb(255,238,170)
|
|
|
|
|
|
|
|
|-
|266
|muscles of lower limb
|style="background:rgb(206,111,93)"|rgb(206,111,93)
|
|
|
|
|
|
|
|
|-
|267
|right lower limb
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|268
|left lower limb
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|269
|right hip
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|270
|left hip
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|271
|right thigh
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|272
|left thigh
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|273
|right knee
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|274
|left knee
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|275
|right leg
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|276
|left leg
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|277
|right foot
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|278
|left foot
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|279
|peripheral nervous system
|style="background:rgb(216,186,0)"|rgb(216,186,0)
|
|
|
|
|
|
|
|
|-
|280
|autonomic nerve
|style="background:rgb(255,226,77)"|rgb(255,226,77)
|
|
|
|
|
|
|
|
|-
|281
|sympathetic trunk
|style="background:rgb(255,243,106)"|rgb(255,243,106)
|
|
|
|
|
|
|
|
|-
|282
|cranial nerves
|style="background:rgb(255,234,92)"|rgb(255,234,92)
|
|
|
|
|
|
|
|
|-
|283
|vagus nerve
|style="background:rgb(240,210,35)"|rgb(240,210,35)
|
|
|
|
|
|
|
|
|-
|284
|peripheral nerve
|style="background:rgb(224,194,0)"|rgb(224,194,0)
|
|
|
|
|
|
|
|
|-
|285
|circulatory system
|style="background:rgb(213,99,79)"|rgb(213,99,79)
|
|
|
|
|
|
|
|
|-
|286
|systemic arterial system
|style="background:rgb(217,102,81)"|rgb(217,102,81)
|
|
|
|
|
|
|
|
|-
|287
|systemic venous system
|style="background:rgb(0,147,202)"|rgb(0,147,202)
|
|
|
|
|
|
|
|
|-
|288
|pulmonary arterial system
|style="background:rgb(0,122,171)"|rgb(0,122,171)
|
|
|
|
|
|
|
|
|-
|289
|pulmonary venous system
|style="background:rgb(186,77,64)"|rgb(186,77,64)
|
|
|
|
|
|
|
|
|-
|290
|lymphatic system
|style="background:rgb(111,197,131)"|rgb(111,197,131)
|
|
|
|
|
|
|
|
|-
|291
|needle
|style="background:rgb(240,255,30)"|rgb(240,255,30)
|
|
|
|
|
| (A-00004,SRT,"Physical Object")
| (A-30360,SRT,"Needle") - CID 7157++
|
|-
|292
|region 0
|style="background:rgb(185,232,61)"|rgb(185,232,61)
|
|
|
|
|
|
|
|
|-
|293
|region 1
|style="background:rgb(0,226,255)"|rgb(0,226,255)
|
|
|
|
|
|
|
|
|-
|294
|region 2
|style="background:rgb(251,159,255)"|rgb(251,159,255)
|
|
|
|
|
|
|
|
|-
|295
|region 3
|style="background:rgb(230,169,29)"|rgb(230,169,29)
|
|
|
|
|
|
|
|
|-
|296
|region 4
|style="background:rgb(0,194,113)"|rgb(0,194,113)
|
|
|
|
|
|
|
|
|-
|297
|region 5
|style="background:rgb(104,160,249)"|rgb(104,160,249)
|
|
|
|
|
|
|
|
|-
|298
|region 6
|style="background:rgb(221,108,158)"|rgb(221,108,158)
|
|
|
|
|
|
|
|
|-
|299
|region 7
|style="background:rgb(137,142,0)"|rgb(137,142,0)
|
|
|
|
|
|
|
|
|-
|300
|region 8
|style="background:rgb(230,70,0)"|rgb(230,70,0)
|
|
|
|
|
|
|
|
|-
|301
|region 9
|style="background:rgb(0,147,0)"|rgb(0,147,0)
|
|
|
|
|
|
|
|
|-
|302
|region 10
|style="background:rgb(0,147,248)"|rgb(0,147,248)
|
|
|
|
|
|
|
|
|-
|303
|region 11
|style="background:rgb(231,0,206)"|rgb(231,0,206)
|
|
|
|
|
|
|
|
|-
|304
|region 12
|style="background:rgb(129,78,0)"|rgb(129,78,0)
|
|
|
|
|
|
|
|
|-
|305
|region 13
|style="background:rgb(0,116,0)"|rgb(0,116,0)
|
|
|
|
|
|
|
|
|-
|306
|region 14
|style="background:rgb(0,0,255)"|rgb(0,0,255)
|
|
|
|
|
|
|
|
|-
|307
|region 15
|style="background:rgb(157,0,0)"|rgb(157,0,0)
|
|
|
|
|
|
|
|
|-
|308
|unknown
|style="background:rgb(100,100,130)"|rgb(100,100,130)
|
|
|
|
|
|
|
|
|-
|309
|cyst
|style="background:rgb(205,205,100)"|rgb(205,205,100)
|
|
|
|
|
| (M-01000,SRT,"Morphologically Altered Structure")
| (M-3340A,SRT,"Cyst") - CID 7159
|
|-
|}

==New labels added==

{| class="wikitable sortable labelpage labelpagetable" border="1"
! integer_label
! text_label
! color
! notes
! anatomic region
! anatomic region modifier
! primary anatomic structure
! primary anatomic structure modifier
! segmented property category - CID 7150
! segmented property type
! segmented property type modifier
|-
| ??
|rectum
|style="background:rgb(0,0,0);color:white"|rgba(?,?,?,?)
|
|
|
|
|
| (M-01000,SRT,"Morphologically Altered Structure")
| (M-3340A,SRT,"Cyst") - CID 7159
|
|-
| ??
| left testis
|style="background:rgb(0,0,0);color:white"|rgba(?,?,?,?)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-94000,SRT,"Testis") - CID 7160
|
|-
| ??
| right testis
|style="background:rgb(0,0,0);color:white"|rgba(?,?,?,?)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-94000,SRT,"Testis") - CID 7160
|
|-
| ??
| cervix
|style="background:rgb(0,0,0);color:white"|rgba(?,?,?,?)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-83200,SRT,"Cervix") - CID 7160
|
|-
| ??
| diaphragm
|style="background:rgb(0,0,0);color:white"|rgba(?,?,?,?)
| DC: ? need left/right - probably not
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-D3400,SRT,"Diaphragm) - CID 7155
|
|-
| ??
| table
|style="background:rgb(0,0,0);color:white"|rgba(?,?,?,?)
| DC: cf. 9 - table detection is handled specifically by some systems
|
|
|
|
| (A-00004,SRT,"Physical Object")
| (A-17350,SRT,"Table") - CID 7158
|
|-
| ??
| clothing
|style="background:rgb(0,0,0);color:white"|rgba(?,?,?,?)
| cf. 9
|
|
|
|
| (A-00004,SRT,"Physical Object")
| (A-00916,SRT,"Clothing") - CID 7158
|
|-
|}

Segmentation objects allow to encode recommended display color in "Recommended Display CIELab Value" (0062,000D) attribute; these values are encoded in [http://en.wikipedia.org/wiki/Lab_color_space CIALab].

Projects:QIN:3D Slicer Annotation Image Markup:Standard Terminology

2012-09-18T13:21:41Z

Dclunie: /* SNOMED */

This is a collection of relevant pieces from:
* http://medical.nema.org/Dicom/2011/11_03pu.pdf
* http://medical.nema.org/Dicom/2011/11_16pu.pdf

=Segmentation image module attributes=

Segmentation image module attributes must in particular include the following (PS 3.3-2011, p.989):

[[Image:PS3.3-SegmentationAttributes.png]]

[[Image:PS3.3-CodedEntryData.png]]

==Code sequence attributes==

[[Image:PS3.3-CodeSequenceAttributes.png]]

==General Anatomy Macro==

The General Anatomy Macro is defined as follows (PS 3.3-2011, p.96):

[[Image:PS3.3-GeneralAnatomyMacro.png]]

==Coding Scheme Designators==

[[Image:PS3.3-CodingSchemeDesignators1.png]]

[[Image:PS3.3-CodingSchemeDesignators2.png]]

NOTE: this table is incomplete, consult PS 3.16-2011 p.43.

=RadLex=
* General information: http://rsna.org/RadLex.aspx
* License: http://rsna.org/uploadedFiles/RSNA/Content/Informatics/radlex_public_license_version_1-0-1.pdf
* Example hierarchy of the term mapping from RadLex browser (liver: http://www.radlex.org/RID/RID13419):

[[Image:RadLex_RID13419.png]]

=SNOMED=

David Clunie in email communication Sept 17, 2012:
<pre>
[...] The [DICOM] agreement with SNOMED
is to allow any implementer to use the terms included in DICOM in their
implementations and products without fee; it is not just to be able to
include them in the text of the standard documents.

So, since Slicer would be using the concepts to include in a DICOM SEG
object, you do not need any additional agreement, nor any agreement with
SNOMED to distribute the source code (my PixelMed Java DICOM toolkit is
full of SNOMED codes, for example, and I neither have not need such an
additional agreement).
</pre>

Notes on choosing SNOMED concepts when fleshing out the table, esp. regarding
anatomy. Make sure that you choose "(body structure)" concepts for anatomy,
and that you pick the "entire ..." concept rather than "structure of" etc.,
and if the choice is not obvious, include about your choice so that these can
be flagged for special attention during review.

=Mapping Slicer GeneralAnatomy LUT to Standard Terminology (work in progress)=
Original GeneralAnatomy LUT see here: http://www.slicer.org/slicerWiki/index.php/Slicer3:2010_GenericAnatomyColors

==Original labels categorized==

{| class="wikitable sortable labelpage labelpagetable" border="1"
! integer_label
! text_label
! color
! notes
! anatomic region
! anatomic region modifier
! primary anatomic structure
! primary anatomic structure modifier
! segmented property category - CID 7150
! segmented property type
! segmented property type modifier
|-
|0
|background
|style="background:rgb(0,0,0);color:white"|rgba(0,0,0,0)
|
|
|
|
|
|
|
|
|-
|1
|tissue
|style="background:rgb(128,174,128)"|rgb(128,174,128)
| Default label for bodily tissues
|
|
|
|
| (T-D0050,SRT,"Tissue")
|
|
|-
|2
|bone
|style="background:rgb(241,214,145)"|rgb(241,214,145)
|
|
|
|
|
| (T-D0050,SRT,"Tissue")
| (T-D016E,SRT,"Bone")
|
|-
|3
|skin
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|4
|connective tissue
|style="background:rgb(111,184,210)"|rgb(111,184,210)
|
|
|
|
|
|
|
|
|-
|5
|blood
|style="background:rgb(216,101,79)"|rgb(216,101,79)
|
|
|
|
|
|
|
|
|-
|6
|organ
|style="background:rgb(221,130,101)"|rgb(221,130,101)
|
|
|
|
|
|
|
|
|-
|7
|mass
|style="background:rgb(144,238,144)"|rgb(144,238,144)
| Could be tumor or other lesion
|
|
|
|
| (M-01000,SRT,"Morphologically Altered Structure")
| (M-03000,SRT,"Mass") - CID 7159++
|
|-
|8
|muscle
|style="background:rgb(192,104,88)"|rgb(192,104,88)
|
|
|
|
|
| (T-D0050,SRT,"Tissue")
| (T-13001,SRT,"Muscle") - CID 7160 (should refactor)
|
|-
|9
|foreign object
|style="background:rgb(220,245,20)"|rgb(220,245,20)
| Implants, surical instruments, table...
|
|
|
|
| (A-00004,SRT,"Physical Object")
| (M-30400,SRT,"Foreign Body")
|
|-
|10
|waste
|style="background:rgb(78,63,0)"|rgb(78,63,0)
|
|
|
|
|
|
|
|
|-
|11
|teeth
|style="background:rgb(255,250,220)"|rgb(255,250,220)
|
|
|
|
|
|
|
|
|-
|12
|fat
|style="background:rgb(230,220,70)"|rgb(230,220,70)
|
|
|
|
|
|
|
|
|-
|13
|gray matter
|style="background:rgb(200,200,235)"|rgb(200,200,235)
| cf. 39 and 116
|
|
|
|
| (T-D0050,SRT,"Tissue")
| (T-A0096,SRT,"Gray Matter") - CID 7153 Edited
|
|-
|14
|white matter
|style="background:rgb(250,250,210)"|rgb(250,250,210)
|
|
|
|
|
| (T-D0050,SRT,"Tissue")
| (T-A0095,SRT,"White Matter") - CID 7153 Edited
|
|-
|15
|nerve
|style="background:rgb(244,214,49)"|rgb(244,214,49)
|
|
|
|
|
|
|
|
|-
|16
|vein
|style="background:rgb(0,151,206)"|rgb(0,151,206)
|
|
|
|
|
|
|
|
|-
|17
|artery
|style="background:rgb(216,101,79)"|rgb(216,101,79)
|
|
|
|
|
|
|
|
|-
|18
|capillary
|style="background:rgb(183,156,220)"|rgb(183,156,220)
|
|
|
|
|
|
|
|
|-
|19
|ligament
|style="background:rgb(183,214,211)"|rgb(183,214,211)
|
|
|
|
|
|
|
|
|-
|20
|tendon
|style="background:rgb(152,189,207)"|rgb(152,189,207)
|
|
|
|
|
|
|
|
|-
|21
|cartilage
|style="background:rgb(111,184,210)"|rgb(111,184,210)
|
|
|
|
|
|
|
|
|-
|22
|meniscus
|style="background:rgb(178,212,242)"|rgb(178,212,242)
|
|
|
|
|
|
|
|
|-
|23
|lymph node
|style="background:rgb(68,172,100)"|rgb(68,172,100)
|
|
|
|
|
|
|
|
|-
|24
|lymphatic vessel
|style="background:rgb(111,197,131)"|rgb(111,197,131)
|
|
|
|
|
|
|
|
|-
|25
|cerebro-spinal fluid
|style="background:rgb(85,188,255)"|rgb(85,188,255)
| cf. 106
|
|
|
|
| (T-D0050,SRT,"Tissue")
| (T-A1000,SRT,"Cerebrospinal Fluid") - CID 7153
|
|-
|26
|bile
|style="background:rgb(0,145,30)"|rgb(0,145,30)
|
|
|
|
|
|
|
|
|-
|27
|urine
|style="background:rgb(214,230,130)"|rgb(214,230,130)
|
|
|
|
|
|
|
|
|-
|28
|feces
|style="background:rgb(78,63,0)"|rgb(78,63,0)
|
|
|
|
|
|
|
|
|-
|29
|gas
|style="background:rgb(218,255,255)"|rgb(218,255,255)
|
|
|
|
|
|
|
|
|-
|30
|fluid
|style="background:rgb(170,250,250)"|rgb(170,250,250)
|
|
|
|
|
|
|
|
|-
|31
|edema
|style="background:rgb(140,224,228)"|rgb(140,224,228)
|
|
|
|
|
| (M-01000,SRT,"Morphologically Altered Structure")
| (M-36300,SRT,"Edema") - CID 7159++
|
|-
|32
|bleeding
|style="background:rgb(188,65,28)"|rgb(188,65,28)
|
|
|
|
|
| (M-01000,SRT,"Morphologically Altered Structure")
| (M-37000,SRT,"Hemorrhage") - CID 7159++
|
|-
|33
|necrosis
|style="background:rgb(216,191,216)"|rgb(216,191,216)
|
|
|
|
|
| (M-01000,SRT,"Morphologically Altered Structure")
| (M-54000,SRT,"Necrosis") - CID 7159
|
|-
|34
|clot
|style="background:rgb(145,60,66)"|rgb(145,60,66)
|
|
|
|
|
| (M-01000,SRT,"Morphologically Altered Structure")
| (M-35000,SRT,"Blood Clot") - CID 7159++
|
|-
|35
|embolism
|style="background:rgb(150,98,83)"|rgb(150,98,83)
|
|
|
|
|
| (M-01000,SRT,"Morphologically Altered Structure")
| (M-35300,SRT,"Embolus") - CID 7159++
|
|-
|36
|head
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|37
|central nervous system
|style="background:rgb(244,214,49)"|rgb(244,214,49)
|
|
|
|
|
|
|
|
|-
|38
|brain
|style="background:rgb(250,250,225)"|rgb(250,250,225)
|
|
|
|
|
| ? tissue or structure
| (T-A0100,SRT,"Brain") - CID 7153++
|
|-
|39
|gray matter of brain
|style="background:rgb(200,200,215)"|rgb(200,200,215)
| cf. 13 and 116
|
|
|
|
| (T-D0050,SRT,"Tissue")
| (T-A2020,SRT,"Cerebral Gray Matter") - CID 7153 Edited
|
|-
|40
|telencephalon
|style="background:rgb(68,131,98)"|rgb(68,131,98)
|
|
|
|
|
|
|
|
|-
|41
|cerebral cortex
|style="background:rgb(128,174,128)"|rgb(128,174,128)
|
|
|
|
|
|
|
|
|-
|42
|right frontal lobe
|style="background:rgb(83,146,164)"|rgb(83,146,164)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A2218,SRT,"Frontal Lobe") - CID 7153++
| (G-A100,SRT,"Right")
|-
|43
|left frontal lobe
|style="background:rgb(83,146,164)"|rgb(83,146,164)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A2218,SRT,"Frontal Lobe") - CID 7153++
| (G-A101,SRT,"Left")
|-
|44
|right temporal lobe
|style="background:rgb(162,115,105)"|rgb(162,115,105)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A2513,SRT,"Temporal Lobe") - CID 7153++
| (G-A100,SRT,"Right")
|-
|45
|left temporal lobe
|style="background:rgb(162,115,105)"|rgb(162,115,105)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A2513,SRT,"Temporal Lobe") - CID 7153++
| (G-A101,SRT,"Left")
|-
|46
|right parietal lobe
|style="background:rgb(141,93,137)"|rgb(141,93,137)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A230F,SRT,"Parietal Lobe") - CID 7153++
| (G-A100,SRT,"Right")
|-
|47
|left parietal lobe
|style="background:rgb(141,93,137)"|rgb(141,93,137)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A230F,SRT,"Parietal Lobe") - CID 7153++
| (G-A101,SRT,"Left")
|-
|48
|right occipital lobe
|style="background:rgb(182,166,110)"|rgb(182,166,110)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A240F,SRT,"Occipital Lobe") - CID 7153++
| (G-A100,SRT,"Right")
|-
|49
|left occipital lobe
|style="background:rgb(182,166,110)"|rgb(182,166,110)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A240F,SRT,"Occipital Lobe") - CID 7153++
| (G-A101,SRT,"Left")
|-
|50
|right insular lobe
|style="background:rgb(188,135,166)"|rgb(188,135,166)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A2615,SRT,"Insula") - CID 7153++
| (G-A100,SRT,"Right")
|-
|51
|left insular lobe
|style="background:rgb(188,135,166)"|rgb(188,135,166)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A2615,SRT,"Insula") - CID 7153++
| (G-A101,SRT,"Left")
|-
|52
|right limbic lobe
|style="background:rgb(154,150,201)"|rgb(154,150,201)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A0036,SRT,"Limbic Lobe") - CID 7153++
| (G-A100,SRT,"Right")
|-
|53
|left limbic lobe
|style="background:rgb(154,150,201)"|rgb(154,150,201)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A0036,SRT,"Limbic Lobe") - CID 7153++
| (G-A101,SRT,"Left")
|-
|54
|right striatum
|style="background:rgb(177,140,190)"|rgb(177,140,190)
|
|
|
|
|
|
|
|
|-
|55
|left striatum
|style="background:rgb(177,140,190)"|rgb(177,140,190)
|
|
|
|
|
|
|
|
|-
|56
|right caudate nucleus
|style="background:rgb(30,111,85)"|rgb(30,111,85)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A3201,SRT,"Caudate Nucleus") - CID 7153++
| (G-A100,SRT,"Right")
|-
|57
|left caudate nucleus
|style="background:rgb(30,111,85)"|rgb(30,111,85)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A3201,SRT,"Caudate Nucleus") - CID 7153++
| (G-A101,SRT,"Left")
|-
|58
|right putamen
|style="background:rgb(210,157,166)"|rgb(210,157,166)
|
|
|
|
|
|
|
|
|-
|59
|left putamen
|style="background:rgb(210,157,166)"|rgb(210,157,166)
|
|
|
|
|
|
|
|
|-
|60
|right pallidum
|style="background:rgb(48,129,126)"|rgb(48,129,126)
|
|
|
|
|
|
|
|
|-
|61
|left pallidum
|style="background:rgb(48,129,126)"|rgb(48,129,126)
|
|
|
|
|
|
|
|
|-
|62
|right amygdaloid complex
|style="background:rgb(98,153,112)"|rgb(98,153,112)
|
|
|
|
|
|
|
|
|-
|63
|left amygdaloid complex
|style="background:rgb(98,153,112)"|rgb(98,153,112)
|
|
|
|
|
|
|
|
|-
|64
|diencephalon
|style="background:rgb(69,110,53)"|rgb(69,110,53)
|
|
|
|
|
|
|
|
|-
|65
|thalamus
|style="background:rgb(166,113,137)"|rgb(166,113,137)
|
|
|
|
|
|
|
|
|-
|66
|right thalamus
|style="background:rgb(122,101,38)"|rgb(122,101,38)
|
|
|
|
|
|
|
|
|-
|67
|left thalamus
|style="background:rgb(122,101,38)"|rgb(122,101,38)
|
|
|
|
|
|
|
|
|-
|68
|pineal gland
|style="background:rgb(253,135,192)"|rgb(253,135,192)
|
|
|
|
|
|
|
|
|-
|69
|midbrain
|style="background:rgb(145,92,109)"|rgb(145,92,109)
|
|
|
|
|
|
|
|
|-
|70
|substantia nigra
|style="background:rgb(46,101,131)"|rgb(46,101,131)
|
|
|
|
|
|
|
|
|-
|71
|right substantia nigra
|style="background:rgb(0,108,112)"|rgb(0,108,112)
|
|
|
|
|
|
|
|
|-
|72
|left substantia nigra
|style="background:rgb(0,108,112)"|rgb(0,108,112)
|
|
|
|
|
|
|
|
|-
|73
|cerebral white matter
|style="background:rgb(250,250,225)"|rgb(250,250,225)
|
|
|
|
|
|
|
|
|-
|74
|right superior longitudinal fasciculus
|style="background:rgb(127,150,88)"|rgb(127,150,88)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A2820,SRT,"Superior Longitudinal Fasciculus") - CID 7153++
| (G-A100,SRT,"Right")
|-
|75
|left superior longitudinal fasciculus
|style="background:rgb(127,150,88)"|rgb(127,150,88)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A2820,SRT,"Superior Longitudinal Fasciculus") - CID 7153++
| (G-A101,SRT,"Left")
|-
|76
|right inferior longitudinal fasciculus
|style="background:rgb(159,116,163)"|rgb(159,116,163)
|
|
|
|
|
|
|
|
|-
|77
|left inferior longitudinal fasciculus
|style="background:rgb(159,116,163)"|rgb(159,116,163)
|
|
|
|
|
|
|
|
|-
|78
|right arcuate fasciculus
|style="background:rgb(125,102,154)"|rgb(125,102,154)
| DC: SNOMED needs fixing - specifies arcuate as synonym (ratehr than part of) superior longitudinal fasciculus
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (276650,FMA,"Arcuate Fasciculus") - CID 7153++
| (G-A100,SRT,"Right")
|-
|79
|left arcuate fasciculus
|style="background:rgb(125,102,154)"|rgb(125,102,154)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (276650,FMA,"Arcuate Fasciculus") - CID 7153++
| (G-A101,SRT,"Left")
|-
|80
|right uncinate fasciculus
|style="background:rgb(106,174,155)"|rgb(106,174,155)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A2831,SRT,"Uncinate Fasciculus") - CID 7153++
| (G-A100,SRT,"Right")
|-
|81
|left uncinate fasciculus
|style="background:rgb(106,174,155)"|rgb(106,174,155)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A2831,SRT,"Uncinate Fasciculus") - CID 7153++
| (G-A101,SRT,"Left")
|-
|82
|right cingulum bundle
|style="background:rgb(154,146,83)"|rgb(154,146,83)
|
|
|
|
|
|
|
|
|-
|83
|left cingulum bundle
|style="background:rgb(154,146,83)"|rgb(154,146,83)
|
|
|
|
|
|
|
|
|-
|84
|projection fibers
|style="background:rgb(126,126,55)"|rgb(126,126,55)
|
|
|
|
|
|
|
|
|-
|85
|right corticospinal tract
|style="background:rgb(201,160,133)"|rgb(201,160,133)
|
|
|
|
|
|
|
|
|-
|86
|left corticospinal tract
|style="background:rgb(201,160,133)"|rgb(201,160,133)
|
|
|
|
|
|
|
|
|-
|87
|right optic radiation
|style="background:rgb(78,152,141)"|rgb(78,152,141)
|
|
|
|
|
|
|
|
|-
|88
|left optic radiation
|style="background:rgb(78,152,141)"|rgb(78,152,141)
|
|
|
|
|
|
|
|
|-
|89
|right medial lemniscus
|style="background:rgb(174,140,103)"|rgb(174,140,103)
|
|
|
|
|
|
|
|
|-
|90
|left medial lemniscus
|style="background:rgb(174,140,103)"|rgb(174,140,103)
|
|
|
|
|
|
|
|
|-
|91
|right superior cerebellar peduncle
|style="background:rgb(139,126,177)"|rgb(139,126,177)
|
|
|
|
|
|
|
|
|-
|92
|left superior cerebellar peduncle
|style="background:rgb(139,126,177)"|rgb(139,126,177)
|
|
|
|
|
|
|
|
|-
|93
|right middle cerebellar peduncle
|style="background:rgb(148,120,72)"|rgb(148,120,72)
|
|
|
|
|
|
|
|
|-
|94
|left middle cerebellar peduncle
|style="background:rgb(148,120,72)"|rgb(148,120,72)
|
|
|
|
|
|
|
|
|-
|95
|right inferior cerebellar peduncle
|style="background:rgb(186,135,135)"|rgb(186,135,135)
|
|
|
|
|
|
|
|
|-
|96
|left inferior cerebellar peduncle
|style="background:rgb(186,135,135)"|rgb(186,135,135)
|
|
|
|
|
|
|
|
|-
|97
|optic chiasm
|style="background:rgb(99,106,24)"|rgb(99,106,24)
|
|
|
|
|
|
|
|
|-
|98
|right optic tract
|style="background:rgb(156,171,108)"|rgb(156,171,108)
|
|
|
|
|
|
|
|
|-
|99
|left optic tract
|style="background:rgb(156,171,108)"|rgb(156,171,108)
|
|
|
|
|
|
|
|
|-
|100
|right fornix
|style="background:rgb(64,123,147)"|rgb(64,123,147)
|
|
|
|
|
|
|
|
|-
|101
|left fornix
|style="background:rgb(64,123,147)"|rgb(64,123,147)
|
|
|
|
|
|
|
|
|-
|102
|commissural fibers
|style="background:rgb(138,95,74)"|rgb(138,95,74)
|
|
|
|
|
|
|
|
|-
|103
|corpus callosum
|style="background:rgb(97,113,158)"|rgb(97,113,158)
|
|
|
|
|
|
|
|
|-
|104
|posterior commissure
|style="background:rgb(126,161,197)"|rgb(126,161,197)
|
|
|
|
|
|
|
|
|-
|105
|cerebellar white matter
|style="background:rgb(194,195,164)"|rgb(194,195,164)
|
|
|
|
|
|
| (T-A6080,SRT,"Cerebellar White Matter") - CID 7153++
|
|-
|106
|CSF space
|style="background:rgb(85,188,255)"|rgb(85,188,255)
| DC: cf. 25; is this one supposed to be brain-specific? assume so
|
|
|
|
|
| (T-A0109,SRT,"Brain Cerebrospinal Fluid Pathway") - CID 7153++
|
|-
|107
|ventricles of brain
|style="background:rgb(88,106,215)"|rgb(88,106,215)
|
|
|
|
|
|
|
|
|-
|108
|right lateral ventricle
|style="background:rgb(88,106,215)"|rgb(88,106,215)
|
|
|
|
|
|
|
|
|-
|109
|left lateral ventricle
|style="background:rgb(88,106,215)"|rgb(88,106,215)
|
|
|
|
|
|
|
|
|-
|110
|right third ventricle
|style="background:rgb(88,106,215)"|rgb(88,106,215)
|
|
|
|
|
|
|
|
|-
|111
|left third ventricle
|style="background:rgb(88,106,215)"|rgb(88,106,215)
|
|
|
|
|
|
|
|
|-
|112
|cerebral aqueduct
|style="background:rgb(88,106,215)"|rgb(88,106,215)
|
|
|
|
|
|
|
|
|-
|113
|fourth ventricle
|style="background:rgb(88,106,215)"|rgb(88,106,215)
|
|
|
|
|
|
|
|
|-
|114
|subarachnoid space
|style="background:rgb(88,106,215)"|rgb(88,106,215)
|
|
|
|
|
|
|
|
|-
|115
|spinal cord
|style="background:rgb(244,214,49)"|rgb(244,214,49)
|
|
|
|
|
|
|
|
|-
|116
|gray matter of spinal cord
|style="background:rgb(200,200,215)"|rgb(200,200,215)
| cf. 7 and 39
|
|
|
|
|
| (T-A7020,SRT,"Spinal Cord Gray Matter") - CID 7153++
|
|-
|117
|white matter of spinal cord
|style="background:rgb(250,250,225)"|rgb(250,250,225)
|
|
|
|
|
|
| (T-A7070,SRT,"Spinal Cord White Matter") - CID 7153++
|
|-
|118
|endocrine system of brain
|style="background:rgb(82,174,128)"|rgb(82,174,128)
|
|
|
|
|
|
|
|
|-
|119
|pituitary gland
|style="background:rgb(57,157,110)"|rgb(57,157,110)
|
|
|
|
|
|
|
|
|-
|120
|adenohypophysis
|style="background:rgb(60,143,83)"|rgb(60,143,83)
|
|
|
|
|
|
|
|
|-
|121
|neurohypophysis
|style="background:rgb(92,162,109)"|rgb(92,162,109)
|
|
|
|
|
|
|
|
|-
|122
|meninges
|style="background:rgb(255,244,209)"|rgb(255,244,209)
|
|
|
|
|
|
| (T-A1110,SRT,"Meninges") - CID 7153
|
|-
|123
|dura mater
|style="background:rgb(255,244,209)"|rgb(255,244,209)
|
|
|
|
|
|
|
|
|-
|124
|arachnoid
|style="background:rgb(255,244,209)"|rgb(255,244,209)
|
|
|
|
|
|
|
|
|-
|125
|pia mater
|style="background:rgb(255,244,209)"|rgb(255,244,209)
|
|
|
|
|
|
|
|
|-
|126
|muscles of head
|style="background:rgb(201,121,77)"|rgb(201,121,77)
|
|
|
|
|
|
|
|
|-
|127
|salivary glands
|style="background:rgb(70,163,117)"|rgb(70,163,117)
|
|
|
|
|
|
|
|
|-
|128
|lips
|style="background:rgb(188,91,95)"|rgb(188,91,95)
|
|
|
|
|
|
|
|
|-
|129
|nose
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|130
|tongue
|style="background:rgb(166,84,94)"|rgb(166,84,94)
|
|
|
|
|
|
|
|
|-
|131
|soft palate
|style="background:rgb(182,105,107)"|rgb(182,105,107)
|
|
|
|
|
|
|
|
|-
|132
|right inner ear
|style="background:rgb(229,147,118)"|rgb(229,147,118)
|
|
|
|
|
|
|
|
|-
|133
|left inner ear
|style="background:rgb(229,147,118)"|rgb(229,147,118)
|
|
|
|
|
|
|
|
|-
|134
|right external ear
|style="background:rgb(174,122,90)"|rgb(174,122,90)
|
|
|
|
|
|
|
|
|-
|135
|left external ear
|style="background:rgb(174,122,90)"|rgb(174,122,90)
|
|
|
|
|
|
|
|
|-
|136
|right middle ear
|style="background:rgb(201,112,73)"|rgb(201,112,73)
|
|
|
|
|
|
|
|
|-
|137
|left middle ear
|style="background:rgb(201,112,73)"|rgb(201,112,73)
|
|
|
|
|
|
|
|
|-
|138
|right eyeball
|style="background:rgb(194,142,0)"|rgb(194,142,0)
|
|
|
|
|
|
|
|
|-
|139
|left eyeball
|style="background:rgb(194,142,0)"|rgb(194,142,0)
|
|
|
|
|
|
|
|
|-
|140
|skull
|style="background:rgb(241,213,144)"|rgb(241,213,144)
|
|
|
|
|
|
| (T-11100,SRT,"Skull") - CID 7153
|
|-
|141
|right frontal bone
|style="background:rgb(203,179,77)"|rgb(203,179,77)
|
|
|
|
|
|
|
|
|-
|142
|left frontal bone
|style="background:rgb(203,179,77)"|rgb(203,179,77)
|
|
|
|
|
|
|
|
|-
|143
|right parietal bone
|style="background:rgb(229,204,109)"|rgb(229,204,109)
|
|
|
|
|
|
|
|
|-
|144
|left parietal bone
|style="background:rgb(229,204,109)"|rgb(229,204,109)
|
|
|
|
|
|
|
|
|-
|145
|right temporal bone
|style="background:rgb(255,243,152)"|rgb(255,243,152)
|
|
|
|
|
|
|
|
|-
|146
|left temporal bone
|style="background:rgb(255,243,152)"|rgb(255,243,152)
|
|
|
|
|
|
|
|
|-
|147
|right sphenoid bone
|style="background:rgb(209,185,85)"|rgb(209,185,85)
|
|
|
|
|
|
|
|
|-
|148
|left sphenoid bone
|style="background:rgb(209,185,85)"|rgb(209,185,85)
|
|
|
|
|
|
|
|
|-
|149
|right ethmoid bone
|style="background:rgb(248,223,131)"|rgb(248,223,131)
|
|
|
|
|
|
|
|
|-
|150
|left ethmoid bone
|style="background:rgb(248,223,131)"|rgb(248,223,131)
|
|
|
|
|
|
|
|
|-
|151
|occipital bone
|style="background:rgb(255,230,138)"|rgb(255,230,138)
|
|
|
|
|
|
|
|
|-
|152
|maxilla
|style="background:rgb(196,172,68)"|rgb(196,172,68)
|
|
|
|
|
|
|
|
|-
|153
|right zygomatic bone
|style="background:rgb(255,255,167)"|rgb(255,255,167)
| DC: ? use more general (T-111BE,SRT,"Zygoma"); also, where is the left one ??
| (T-11167,SRT,"Zygomatic arch") - CID 4028
| (G-A100,SRT,"Right")
|
|
|
|
|
|-
|154
|right lacrimal bone
|style="background:rgb(255,250,160)"|rgb(255,250,160)
|
|
|
|
|
|
|
|
|-
|155
|vomer bone
|style="background:rgb(255,237,145)"|rgb(255,237,145)
|
|
|
|
|
|
|
|
|-
|156
|right palatine bone
|style="background:rgb(242,217,123)"|rgb(242,217,123)
|
| (T-111A8,SRT,"Palatine Bone")
| (G-A100,SRT,"Right")
|
|
|
|
|
|-
|157
|left palatine bone
|style="background:rgb(242,217,123)"|rgb(242,217,123)
|
| (T-111A8,SRT,"Palatine Bone")
| (G-A101,SRT,"Left")
|
|
|
|
|
|-
|158
|mandible
|style="background:rgb(222,198,101)"|rgb(222,198,101)
|
|
|
|
|
|
|
|
|-
|159
|neck
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|160
|muscles of neck
|style="background:rgb(213,124,109)"|rgb(213,124,109)
|
|
|
|
|
|
|
|
|-
|161
|pharynx
|style="background:rgb(184,105,108)"|rgb(184,105,108)
|
|
|
|
|
|
|
|
|-
|162
|larynx
|style="background:rgb(150,208,243)"|rgb(150,208,243)
|
|
|
|
|
|
|
|
|-
|163
|thyroid gland
|style="background:rgb(62,162,114)"|rgb(62,162,114)
|
|
|
|
|
|
|
|
|-
|164
|right parathyroid glands
|style="background:rgb(62,162,114)"|rgb(62,162,114)
|
|
|
|
|
|
|
|
|-
|165
|left parathyroid glands
|style="background:rgb(62,162,114)"|rgb(62,162,114)
|
|
|
|
|
|
|
|
|-
|166
|skeleton of neck
|style="background:rgb(242,206,142)"|rgb(242,206,142)
|
|
|
|
|
|
|
|
|-
|167
|hyoid bone
|style="background:rgb(250,210,139)"|rgb(250,210,139)
|
|
|
|
|
|
|
|
|-
|168
|cervical vertebral column
|style="background:rgb(255,255,207)"|rgb(255,255,207)
|
|
|
|
|
|
|
|
|-
|169
|thorax
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|170
|trachea
|style="background:rgb(182,228,255)"|rgb(182,228,255)
|
|
|
|
|
|
|
|
|-
|171
|bronchi
|style="background:rgb(175,216,244)"|rgb(175,216,244)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-26000,SRT,"Bronchi") - CID 7155
|
|-
|172
|right lung
|style="background:rgb(197,165,145)"|rgb(197,165,145)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-28000,SRT,"Lung") - CID 7155
| (G-A100,SRT,"Right")
|-
|173
|left lung
|style="background:rgb(197,165,145)"|rgb(197,165,145)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-28000,SRT,"Lung") - CID 7155
| (G-A101,SRT,"Left")
|-
|174
|superior lobe of right lung
|style="background:rgb(172,138,115)"|rgb(172,138,115)
|
|
|
|
|
|
|
|
|-
|175
|superior lobe of left lung
|style="background:rgb(172,138,115)"|rgb(172,138,115)
|
|
|
|
|
|
|
|
|-
|176
|middle lobe of right lung
|style="background:rgb(202,164,140)"|rgb(202,164,140)
|
|
|
|
|
|
|
|
|-
|177
|inferior lobe of right lung
|style="background:rgb(224,186,162)"|rgb(224,186,162)
|
|
|
|
|
|
|
|
|-
|178
|inferior lobe of left lung
|style="background:rgb(224,186,162)"|rgb(224,186,162)
|
|
|
|
|
|
|
|
|-
|179
|pleura
|style="background:rgb(255,245,217)"|rgb(255,245,217)
|
|
|
|
|
|
|
|
|-
|180
|heart
|style="background:rgb(206,110,84)"|rgb(206,110,84)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-32000,SRT,"Heart") - CID 7152
|
|-
|181
|right atrium
|style="background:rgb(210,115,89)"|rgb(210,115,89)
|
|
|
|
|
|
|
|
|-
|182
|left atrium
|style="background:rgb(203,108,81)"|rgb(203,108,81)
|
|
|
|
|
|
|
|
|-
|183
|atrial septum
|style="background:rgb(233,138,112)"|rgb(233,138,112)
|
|
|
|
|
|
|
|
|-
|184
|ventricular septum
|style="background:rgb(195,100,73)"|rgb(195,100,73)
|
|
|
|
|
|
|
|
|-
|185
|right ventricle of heart
|style="background:rgb(181,85,57)"|rgb(181,85,57)
| DC: SRT code is precordinated; no need for laterality modifier
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-32500,SRT,"Right Ventricle") - CID 7152
|
|-
|186
|left ventricle of heart
|style="background:rgb(152,55,13)"|rgb(152,55,13)
| DC: SRT code is precordinated; no need for laterality modifier
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-32600,SRT,"Left Ventricle") - CID 7152
|
|-
|187
|mitral valve
|style="background:rgb(159,63,27)"|rgb(159,63,27)
|
|
|
|
|
|
|
|
|-
|188
|tricuspid valve
|style="background:rgb(166,70,38)"|rgb(166,70,38)
|
|
|
|
|
|
|
|
|-
|189
|aortic valve
|style="background:rgb(218,123,97)"|rgb(218,123,97)
|
|
|
|
|
|
|
|
|-
|190
|pulmonary valve
|style="background:rgb(225,130,104)"|rgb(225,130,104)
|
|
|
|
|
|
|
|
|-
|191
|aorta
|style="background:rgb(224,97,76)"|rgb(224,97,76)
| DC: ? need specific parts (ascending, arch, descending thoracic, abdominal)
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-42000,SRT,"Aorta") - CID 7152
|
|-
|192
|pericardium
|style="background:rgb(255,244,209)"|rgb(255,244,209)
|
|
|
|
|
|
|
|
|-
|193
|pericardial cavity
|style="background:rgb(184,122,154)"|rgb(184,122,154)
|
|
|
|
|
|
|
|
|-
|194
|esophagus
|style="background:rgb(211,171,143)"|rgb(211,171,143)
|
|
|
|
|
|
|
|
|-
|195
|thymus
|style="background:rgb(47,150,103)"|rgb(47,150,103)
|
|
|
|
|
|
|
|
|-
|196
|mediastinum
|style="background:rgb(255,244,209)"|rgb(255,244,209)
|
|
|
|
|
|
|
|
|-
|197
|skin of thoracic wall
|style="background:rgb(173,121,88)"|rgb(173,121,88)
|
|
|
|
|
|
|
|
|-
|198
|muscles of thoracic wall
|style="background:rgb(188,95,76)"|rgb(188,95,76)
|
|
|
|
|
|
|
|
|-
|199
|skeleton of thorax
|style="background:rgb(255,239,172)"|rgb(255,239,172)
|
|
|
|
|
|
|
|
|-
|200
|thoracic vertebral column
|style="background:rgb(226,202,134)"|rgb(226,202,134)
|
|
|
|
|
|
|
|
|-
|201
|ribs
|style="background:rgb(253,232,158)"|rgb(253,232,158)
|
|
|
|
|
|
|
|
|-
|202
|sternum
|style="background:rgb(244,217,154)"|rgb(244,217,154)
|
|
|
|
|
|
|
|
|-
|203
|right clavicle
|style="background:rgb(205,179,108)"|rgb(205,179,108)
|
|
|
|
|
|
|
|
|-
|204
|left clavicle
|style="background:rgb(205,179,108)"|rgb(205,179,108)
|
|
|
|
|
|
|
|
|-
|205
|abdominal cavity
|style="background:rgb(186,124,161)"|rgb(186,124,161)
|
|
|
|
|
|
|
|
|-
|206
|abdomen
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|207
|peritoneum
|style="background:rgb(255,255,220)"|rgb(255,255,220)
|
|
|
|
|
|
|
|
|-
|208
|omentum
|style="background:rgb(234,234,194)"|rgb(234,234,194)
|
|
|
|
|
|
|
|
|-
|209
|peritoneal cavity
|style="background:rgb(204,142,178)"|rgb(204,142,178)
|
|
|
|
|
|
|
|
|-
|210
|retroperitoneal space
|style="background:rgb(180,119,153)"|rgb(180,119,153)
|
|
|
|
|
|
|
|
|-
|211
|stomach
|style="background:rgb(216,132,105)"|rgb(216,132,105)
|
|
|
|
|
|
|
|
|-
|212
|duodenum
|style="background:rgb(255,253,229)"|rgb(255,253,229)
|
|
|
|
|
|
|
|
|-
|213
|small bowel
|style="background:rgb(205,167,142)"|rgb(205,167,142)
|
|
|
|
|
|
|
|
|-
|214
|colon
|style="background:rgb(204,168,143)"|rgb(204,168,143)
|
|
|
|
|
|
|
|
|-
|215
|anus
|style="background:rgb(255,224,199)"|rgb(255,224,199)
|
|
|
|
|
|
|
|
|-
|216
|liver
|style="background:rgb(221,130,101)"|rgb(221,130,101)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-62000,SRT,"Liver") - CID 7154
|
|-
|217
|biliary tree
|style="background:rgb(0,145,30)"|rgb(0,145,30)
|
|
|
|
|
|
|
|
|-
|218
|gallbladder
|style="background:rgb(139,150,98)"|rgb(139,150,98)
|
|
|
|
|
|
|
|
|-
|219
|pancreas
|style="background:rgb(249,180,111)"|rgb(249,180,111)
|
|
|
|
|
|
|
|
|-
|220
|spleen
|style="background:rgb(157,108,162)"|rgb(157,108,162)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-C3000,SRT,"Spleen) - CID 7154
|
|-
|221
|urinary system
|style="background:rgb(203,136,116)"|rgb(203,136,116)
|
|
|
|
|
|
|
|
|-
|222
|right kidney
|style="background:rgb(185,102,83)"|rgb(185,102,83)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-71000,SRT,"Kidney") - CID 7154
| (G-A100,SRT,"Right")
|-
|223
|left kidney
|style="background:rgb(185,102,83)"|rgb(185,102,83)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-71000,SRT,"Kidney") - CID 7154
| (G-A101,SRT,"Left")
|-
|224
|right ureter
|style="background:rgb(247,182,164)"|rgb(247,182,164)
|
|
|
|
|
|
|
|
|-
|225
|left ureter
|style="background:rgb(247,182,164)"|rgb(247,182,164)
|
|
|
|
|
|
|
|
|-
|226
|urinary bladder
|style="background:rgb(222,154,132)"|rgb(222,154,132)
|
|
|
|
|
|
|
|
|-
|227
|urethra
|style="background:rgb(124,186,223)"|rgb(124,186,223)
|
|
|
|
|
|
|
|
|-
|228
|right adrenal gland
|style="background:rgb(249,186,150)"|rgb(249,186,150)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-B3000,SRT,"Adrenal Gland")
| (G-A100,SRT,"Right")
|-
|229
|left adrenal gland
|style="background:rgb(249,186,150)"|rgb(249,186,150)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-B3000,SRT,"Adrenal Gland")
| (G-A101,SRT,"Left")
|-
|230
|female internal genitalia
|style="background:rgb(244,170,147)"|rgb(244,170,147)
|
|
|
|
|
|
|
|
|-
|231
|uterus
|style="background:rgb(255,181,158)"|rgb(255,181,158)
|
|
|
|
|
|
|
|
|-
|232
|right fallopian tube
|style="background:rgb(255,190,165)"|rgb(255,190,165)
|
|
|
|
|
|
|
|
|-
|233
|left fallopian tube
|style="background:rgb(227,153,130)"|rgb(227,153,130)
|
|
|
|
|
|
|
|
|-
|234
|right ovary
|style="background:rgb(213,141,113)"|rgb(213,141,113)
|
|
|
|
|
|
|
|
|-
|235
|left ovary
|style="background:rgb(213,141,113)"|rgb(213,141,113)
|
|
|
|
|
|
|
|
|-
|236
|vagina
|style="background:rgb(193,123,103)"|rgb(193,123,103)
|
|
|
|
|
|
|
|
|-
|237
|male internal genitalia
|style="background:rgb(216,146,127)"|rgb(216,146,127)
|
|
|
|
|
|
|
|
|-
|238
|prostate
|style="background:rgb(230,158,140)"|rgb(230,158,140)
|
|
|
|
|
|
|
|
|-
|239
|right seminal vesicle
|style="background:rgb(245,172,147)"|rgb(245,172,147)
|
|
|
|
|
|
|
|
|-
|240
|left seminal vesicle
|style="background:rgb(245,172,147)"|rgb(245,172,147)
|
|
|
|
|
|
|
|
|-
|241
|right deferent duct
|style="background:rgb(241,172,151)"|rgb(241,172,151)
|
|
|
|
|
|
|
|
|-
|242
|left deferent duct
|style="background:rgb(241,172,151)"|rgb(241,172,151)
|
|
|
|
|
|
|
|
|-
|243
|skin of abdominal wall
|style="background:rgb(177,124,92)"|rgb(177,124,92)
|
|
|
|
|
|
|
|
|-
|244
|muscles of abdominal wall
|style="background:rgb(171,85,68)"|rgb(171,85,68)
|
|
|
|
|
|
|
|
|-
|245
|skeleton of abdomen
|style="background:rgb(217,198,131)"|rgb(217,198,131)
|
|
|
|
|
|
|
|
|-
|246
|lumbar vertebral column
|style="background:rgb(212,188,102)"|rgb(212,188,102)
|
|
|
|
|
|
|
|
|-
|247
|female external genitalia
|style="background:rgb(185,135,134)"|rgb(185,135,134)
|
|
|
|
|
|
|
|
|-
|248
|male external genitalia
|style="background:rgb(185,135,134)"|rgb(185,135,134)
|
|
|
|
|
|
|
|
|-
|249
|skeleton of upper limb
|style="background:rgb(198,175,125)"|rgb(198,175,125)
|
|
|
|
|
|
|
|
|-
|250
|muscles of upper limb
|style="background:rgb(194,98,79)"|rgb(194,98,79)
|
|
|
|
|
|
|
|
|-
|251
|right upper limb
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|252
|left upper limb
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|253
|right shoulder
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|254
|left shoulder
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|255
|right arm
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|256
|left arm
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|257
|right elbow
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|258
|left elbow
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|259
|right forearm
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|260
|left forearm
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|261
|right wrist
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|262
|left wrist
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|263
|right hand
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|264
|left hand
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|265
|skeleton of lower limb
|style="background:rgb(255,238,170)"|rgb(255,238,170)
|
|
|
|
|
|
|
|
|-
|266
|muscles of lower limb
|style="background:rgb(206,111,93)"|rgb(206,111,93)
|
|
|
|
|
|
|
|
|-
|267
|right lower limb
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|268
|left lower limb
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|269
|right hip
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|270
|left hip
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|271
|right thigh
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|272
|left thigh
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|273
|right knee
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|274
|left knee
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|275
|right leg
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|276
|left leg
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|277
|right foot
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|278
|left foot
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|279
|peripheral nervous system
|style="background:rgb(216,186,0)"|rgb(216,186,0)
|
|
|
|
|
|
|
|
|-
|280
|autonomic nerve
|style="background:rgb(255,226,77)"|rgb(255,226,77)
|
|
|
|
|
|
|
|
|-
|281
|sympathetic trunk
|style="background:rgb(255,243,106)"|rgb(255,243,106)
|
|
|
|
|
|
|
|
|-
|282
|cranial nerves
|style="background:rgb(255,234,92)"|rgb(255,234,92)
|
|
|
|
|
|
|
|
|-
|283
|vagus nerve
|style="background:rgb(240,210,35)"|rgb(240,210,35)
|
|
|
|
|
|
|
|
|-
|284
|peripheral nerve
|style="background:rgb(224,194,0)"|rgb(224,194,0)
|
|
|
|
|
|
|
|
|-
|285
|circulatory system
|style="background:rgb(213,99,79)"|rgb(213,99,79)
|
|
|
|
|
|
|
|
|-
|286
|systemic arterial system
|style="background:rgb(217,102,81)"|rgb(217,102,81)
|
|
|
|
|
|
|
|
|-
|287
|systemic venous system
|style="background:rgb(0,147,202)"|rgb(0,147,202)
|
|
|
|
|
|
|
|
|-
|288
|pulmonary arterial system
|style="background:rgb(0,122,171)"|rgb(0,122,171)
|
|
|
|
|
|
|
|
|-
|289
|pulmonary venous system
|style="background:rgb(186,77,64)"|rgb(186,77,64)
|
|
|
|
|
|
|
|
|-
|290
|lymphatic system
|style="background:rgb(111,197,131)"|rgb(111,197,131)
|
|
|
|
|
|
|
|
|-
|291
|needle
|style="background:rgb(240,255,30)"|rgb(240,255,30)
|
|
|
|
|
| (A-00004,SRT,"Physical Object")
| (A-30360,SRT,"Needle") - CID 7157++
|
|-
|292
|region 0
|style="background:rgb(185,232,61)"|rgb(185,232,61)
|
|
|
|
|
|
|
|
|-
|293
|region 1
|style="background:rgb(0,226,255)"|rgb(0,226,255)
|
|
|
|
|
|
|
|
|-
|294
|region 2
|style="background:rgb(251,159,255)"|rgb(251,159,255)
|
|
|
|
|
|
|
|
|-
|295
|region 3
|style="background:rgb(230,169,29)"|rgb(230,169,29)
|
|
|
|
|
|
|
|
|-
|296
|region 4
|style="background:rgb(0,194,113)"|rgb(0,194,113)
|
|
|
|
|
|
|
|
|-
|297
|region 5
|style="background:rgb(104,160,249)"|rgb(104,160,249)
|
|
|
|
|
|
|
|
|-
|298
|region 6
|style="background:rgb(221,108,158)"|rgb(221,108,158)
|
|
|
|
|
|
|
|
|-
|299
|region 7
|style="background:rgb(137,142,0)"|rgb(137,142,0)
|
|
|
|
|
|
|
|
|-
|300
|region 8
|style="background:rgb(230,70,0)"|rgb(230,70,0)
|
|
|
|
|
|
|
|
|-
|301
|region 9
|style="background:rgb(0,147,0)"|rgb(0,147,0)
|
|
|
|
|
|
|
|
|-
|302
|region 10
|style="background:rgb(0,147,248)"|rgb(0,147,248)
|
|
|
|
|
|
|
|
|-
|303
|region 11
|style="background:rgb(231,0,206)"|rgb(231,0,206)
|
|
|
|
|
|
|
|
|-
|304
|region 12
|style="background:rgb(129,78,0)"|rgb(129,78,0)
|
|
|
|
|
|
|
|
|-
|305
|region 13
|style="background:rgb(0,116,0)"|rgb(0,116,0)
|
|
|
|
|
|
|
|
|-
|306
|region 14
|style="background:rgb(0,0,255)"|rgb(0,0,255)
|
|
|
|
|
|
|
|
|-
|307
|region 15
|style="background:rgb(157,0,0)"|rgb(157,0,0)
|
|
|
|
|
|
|
|
|-
|308
|unknown
|style="background:rgb(100,100,130)"|rgb(100,100,130)
|
|
|
|
|
|
|
|
|-
|309
|cyst
|style="background:rgb(205,205,100)"|rgb(205,205,100)
|
|
|
|
|
|
|
|
|-
|}

==New labels added==

{| class="wikitable sortable labelpage labelpagetable" border="1"
! integer_label
! text_label
! color
! notes
! anatomic region
! anatomic region modifier
! primary anatomic structure
! primary anatomic structure modifier
! segmented property category - CID 7150
! segmented property type
! segmented property type modifier
|-
| ??
|rectum
|style="background:rgb(0,0,0);color:white"|rgba(?,?,?,?)
|
|
|
|
|
| (M-01000,SRT,"Morphologically Altered Structure")
| (M-3340A,SRT,"Cyst") - CID 7159
|
|-
| ??
| left testis
|style="background:rgb(0,0,0);color:white"|rgba(?,?,?,?)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-94000,SRT,"Testis") - CID 7160
|
|-
| ??
| right testis
|style="background:rgb(0,0,0);color:white"|rgba(?,?,?,?)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-94000,SRT,"Testis") - CID 7160
|
|-
| ??
| cervix
|style="background:rgb(0,0,0);color:white"|rgba(?,?,?,?)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-83200,SRT,"Cervix") - CID 7160
|
|-
| ??
| diaphragm
|style="background:rgb(0,0,0);color:white"|rgba(?,?,?,?)
| DC: ? need left/right - probably not
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-D3400,SRT,"Diaphragm) - CID 7155
|
|-
| ??
| table
|style="background:rgb(0,0,0);color:white"|rgba(?,?,?,?)
| DC: cf. 9 - table detection is handled specifically by some systems
|
|
|
|
| (A-00004,SRT,"Physical Object")
| (A-17350,SRT,"Table") - CID 7158
|
|-
| ??
| clothing
|style="background:rgb(0,0,0);color:white"|rgba(?,?,?,?)
| cf. 9
|
|
|
|
| (A-00004,SRT,"Physical Object")
| (A-00916,SRT,"Clothing") - CID 7158
|
|-
|}

Segmentation objects allow to encode recommended display color in "Recommended Display CIELab Value" (0062,000D) attribute; these values are encoded in [http://en.wikipedia.org/wiki/Lab_color_space CIALab].

Projects:QIN:3D Slicer Annotation Image Markup:Standard Terminology

2012-09-18T13:14:43Z

Dclunie: /* Original labels categorized */

This is a collection of relevant pieces from:
* http://medical.nema.org/Dicom/2011/11_03pu.pdf
* http://medical.nema.org/Dicom/2011/11_16pu.pdf

=Segmentation image module attributes=

Segmentation image module attributes must in particular include the following (PS 3.3-2011, p.989):

[[Image:PS3.3-SegmentationAttributes.png]]

[[Image:PS3.3-CodedEntryData.png]]

==Code sequence attributes==

[[Image:PS3.3-CodeSequenceAttributes.png]]

==General Anatomy Macro==

The General Anatomy Macro is defined as follows (PS 3.3-2011, p.96):

[[Image:PS3.3-GeneralAnatomyMacro.png]]

==Coding Scheme Designators==

[[Image:PS3.3-CodingSchemeDesignators1.png]]

[[Image:PS3.3-CodingSchemeDesignators2.png]]

NOTE: this table is incomplete, consult PS 3.16-2011 p.43.

=RadLex=
* General information: http://rsna.org/RadLex.aspx
* License: http://rsna.org/uploadedFiles/RSNA/Content/Informatics/radlex_public_license_version_1-0-1.pdf
* Example hierarchy of the term mapping from RadLex browser (liver: http://www.radlex.org/RID/RID13419):

[[Image:RadLex_RID13419.png]]

=SNOMED=

David Clunie in email communication Sept 17, 2012:
<pre>
[...] The [DICOM] agreement with SNOMED
is to allow any implementer to use the terms included in DICOM in their
implementations and products without fee; it is not just to be able to
include them in the text of the standard documents.

So, since Slicer would be using the concepts to include in a DICOM SEG
object, you do not need any additional agreement, nor any agreement with
SNOMED to distribute the source code (my PixelMed Java DICOM toolkit is
full of SNOMED codes, for example, and I neither have not need such an
additional agreement).
</pre>

=Mapping Slicer GeneralAnatomy LUT to Standard Terminology (work in progress)=
Original GeneralAnatomy LUT see here: http://www.slicer.org/slicerWiki/index.php/Slicer3:2010_GenericAnatomyColors

==Original labels categorized==

{| class="wikitable sortable labelpage labelpagetable" border="1"
! integer_label
! text_label
! color
! notes
! anatomic region
! anatomic region modifier
! primary anatomic structure
! primary anatomic structure modifier
! segmented property category - CID 7150
! segmented property type
! segmented property type modifier
|-
|0
|background
|style="background:rgb(0,0,0);color:white"|rgba(0,0,0,0)
|
|
|
|
|
|
|
|
|-
|1
|tissue
|style="background:rgb(128,174,128)"|rgb(128,174,128)
| Default label for bodily tissues
|
|
|
|
| (T-D0050,SRT,"Tissue")
|
|
|-
|2
|bone
|style="background:rgb(241,214,145)"|rgb(241,214,145)
|
|
|
|
|
| (T-D0050,SRT,"Tissue")
| (T-D016E,SRT,"Bone")
|
|-
|3
|skin
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|4
|connective tissue
|style="background:rgb(111,184,210)"|rgb(111,184,210)
|
|
|
|
|
|
|
|
|-
|5
|blood
|style="background:rgb(216,101,79)"|rgb(216,101,79)
|
|
|
|
|
|
|
|
|-
|6
|organ
|style="background:rgb(221,130,101)"|rgb(221,130,101)
|
|
|
|
|
|
|
|
|-
|7
|mass
|style="background:rgb(144,238,144)"|rgb(144,238,144)
| Could be tumor or other lesion
|
|
|
|
| (M-01000,SRT,"Morphologically Altered Structure")
| (M-03000,SRT,"Mass") - CID 7159++
|
|-
|8
|muscle
|style="background:rgb(192,104,88)"|rgb(192,104,88)
|
|
|
|
|
| (T-D0050,SRT,"Tissue")
| (T-13001,SRT,"Muscle") - CID 7160 (should refactor)
|
|-
|9
|foreign object
|style="background:rgb(220,245,20)"|rgb(220,245,20)
| Implants, surical instruments, table...
|
|
|
|
| (A-00004,SRT,"Physical Object")
| (M-30400,SRT,"Foreign Body")
|
|-
|10
|waste
|style="background:rgb(78,63,0)"|rgb(78,63,0)
|
|
|
|
|
|
|
|
|-
|11
|teeth
|style="background:rgb(255,250,220)"|rgb(255,250,220)
|
|
|
|
|
|
|
|
|-
|12
|fat
|style="background:rgb(230,220,70)"|rgb(230,220,70)
|
|
|
|
|
|
|
|
|-
|13
|gray matter
|style="background:rgb(200,200,235)"|rgb(200,200,235)
| cf. 39 and 116
|
|
|
|
| (T-D0050,SRT,"Tissue")
| (T-A0096,SRT,"Gray Matter") - CID 7153 Edited
|
|-
|14
|white matter
|style="background:rgb(250,250,210)"|rgb(250,250,210)
|
|
|
|
|
| (T-D0050,SRT,"Tissue")
| (T-A0095,SRT,"White Matter") - CID 7153 Edited
|
|-
|15
|nerve
|style="background:rgb(244,214,49)"|rgb(244,214,49)
|
|
|
|
|
|
|
|
|-
|16
|vein
|style="background:rgb(0,151,206)"|rgb(0,151,206)
|
|
|
|
|
|
|
|
|-
|17
|artery
|style="background:rgb(216,101,79)"|rgb(216,101,79)
|
|
|
|
|
|
|
|
|-
|18
|capillary
|style="background:rgb(183,156,220)"|rgb(183,156,220)
|
|
|
|
|
|
|
|
|-
|19
|ligament
|style="background:rgb(183,214,211)"|rgb(183,214,211)
|
|
|
|
|
|
|
|
|-
|20
|tendon
|style="background:rgb(152,189,207)"|rgb(152,189,207)
|
|
|
|
|
|
|
|
|-
|21
|cartilage
|style="background:rgb(111,184,210)"|rgb(111,184,210)
|
|
|
|
|
|
|
|
|-
|22
|meniscus
|style="background:rgb(178,212,242)"|rgb(178,212,242)
|
|
|
|
|
|
|
|
|-
|23
|lymph node
|style="background:rgb(68,172,100)"|rgb(68,172,100)
|
|
|
|
|
|
|
|
|-
|24
|lymphatic vessel
|style="background:rgb(111,197,131)"|rgb(111,197,131)
|
|
|
|
|
|
|
|
|-
|25
|cerebro-spinal fluid
|style="background:rgb(85,188,255)"|rgb(85,188,255)
| cf. 106
|
|
|
|
| (T-D0050,SRT,"Tissue")
| (T-A1000,SRT,"Cerebrospinal Fluid") - CID 7153
|
|-
|26
|bile
|style="background:rgb(0,145,30)"|rgb(0,145,30)
|
|
|
|
|
|
|
|
|-
|27
|urine
|style="background:rgb(214,230,130)"|rgb(214,230,130)
|
|
|
|
|
|
|
|
|-
|28
|feces
|style="background:rgb(78,63,0)"|rgb(78,63,0)
|
|
|
|
|
|
|
|
|-
|29
|gas
|style="background:rgb(218,255,255)"|rgb(218,255,255)
|
|
|
|
|
|
|
|
|-
|30
|fluid
|style="background:rgb(170,250,250)"|rgb(170,250,250)
|
|
|
|
|
|
|
|
|-
|31
|edema
|style="background:rgb(140,224,228)"|rgb(140,224,228)
|
|
|
|
|
| (M-01000,SRT,"Morphologically Altered Structure")
| (M-36300,SRT,"Edema") - CID 7159++
|
|-
|32
|bleeding
|style="background:rgb(188,65,28)"|rgb(188,65,28)
|
|
|
|
|
| (M-01000,SRT,"Morphologically Altered Structure")
| (M-37000,SRT,"Hemorrhage") - CID 7159++
|
|-
|33
|necrosis
|style="background:rgb(216,191,216)"|rgb(216,191,216)
|
|
|
|
|
| (M-01000,SRT,"Morphologically Altered Structure")
| (M-54000,SRT,"Necrosis") - CID 7159
|
|-
|34
|clot
|style="background:rgb(145,60,66)"|rgb(145,60,66)
|
|
|
|
|
| (M-01000,SRT,"Morphologically Altered Structure")
| (M-35000,SRT,"Blood Clot") - CID 7159++
|
|-
|35
|embolism
|style="background:rgb(150,98,83)"|rgb(150,98,83)
|
|
|
|
|
| (M-01000,SRT,"Morphologically Altered Structure")
| (M-35300,SRT,"Embolus") - CID 7159++
|
|-
|36
|head
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|37
|central nervous system
|style="background:rgb(244,214,49)"|rgb(244,214,49)
|
|
|
|
|
|
|
|
|-
|38
|brain
|style="background:rgb(250,250,225)"|rgb(250,250,225)
|
|
|
|
|
| ? tissue or structure
| (T-A0100,SRT,"Brain") - CID 7153++
|
|-
|39
|gray matter of brain
|style="background:rgb(200,200,215)"|rgb(200,200,215)
| cf. 13 and 116
|
|
|
|
| (T-D0050,SRT,"Tissue")
| (T-A2020,SRT,"Cerebral Gray Matter") - CID 7153 Edited
|
|-
|40
|telencephalon
|style="background:rgb(68,131,98)"|rgb(68,131,98)
|
|
|
|
|
|
|
|
|-
|41
|cerebral cortex
|style="background:rgb(128,174,128)"|rgb(128,174,128)
|
|
|
|
|
|
|
|
|-
|42
|right frontal lobe
|style="background:rgb(83,146,164)"|rgb(83,146,164)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A2218,SRT,"Frontal Lobe") - CID 7153++
| (G-A100,SRT,"Right")
|-
|43
|left frontal lobe
|style="background:rgb(83,146,164)"|rgb(83,146,164)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A2218,SRT,"Frontal Lobe") - CID 7153++
| (G-A101,SRT,"Left")
|-
|44
|right temporal lobe
|style="background:rgb(162,115,105)"|rgb(162,115,105)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A2513,SRT,"Temporal Lobe") - CID 7153++
| (G-A100,SRT,"Right")
|-
|45
|left temporal lobe
|style="background:rgb(162,115,105)"|rgb(162,115,105)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A2513,SRT,"Temporal Lobe") - CID 7153++
| (G-A101,SRT,"Left")
|-
|46
|right parietal lobe
|style="background:rgb(141,93,137)"|rgb(141,93,137)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A230F,SRT,"Parietal Lobe") - CID 7153++
| (G-A100,SRT,"Right")
|-
|47
|left parietal lobe
|style="background:rgb(141,93,137)"|rgb(141,93,137)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A230F,SRT,"Parietal Lobe") - CID 7153++
| (G-A101,SRT,"Left")
|-
|48
|right occipital lobe
|style="background:rgb(182,166,110)"|rgb(182,166,110)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A240F,SRT,"Occipital Lobe") - CID 7153++
| (G-A100,SRT,"Right")
|-
|49
|left occipital lobe
|style="background:rgb(182,166,110)"|rgb(182,166,110)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A240F,SRT,"Occipital Lobe") - CID 7153++
| (G-A101,SRT,"Left")
|-
|50
|right insular lobe
|style="background:rgb(188,135,166)"|rgb(188,135,166)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A2615,SRT,"Insula") - CID 7153++
| (G-A100,SRT,"Right")
|-
|51
|left insular lobe
|style="background:rgb(188,135,166)"|rgb(188,135,166)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A2615,SRT,"Insula") - CID 7153++
| (G-A101,SRT,"Left")
|-
|52
|right limbic lobe
|style="background:rgb(154,150,201)"|rgb(154,150,201)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A0036,SRT,"Limbic Lobe") - CID 7153++
| (G-A100,SRT,"Right")
|-
|53
|left limbic lobe
|style="background:rgb(154,150,201)"|rgb(154,150,201)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A0036,SRT,"Limbic Lobe") - CID 7153++
| (G-A101,SRT,"Left")
|-
|54
|right striatum
|style="background:rgb(177,140,190)"|rgb(177,140,190)
|
|
|
|
|
|
|
|
|-
|55
|left striatum
|style="background:rgb(177,140,190)"|rgb(177,140,190)
|
|
|
|
|
|
|
|
|-
|56
|right caudate nucleus
|style="background:rgb(30,111,85)"|rgb(30,111,85)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A3201,SRT,"Caudate Nucleus") - CID 7153++
| (G-A100,SRT,"Right")
|-
|57
|left caudate nucleus
|style="background:rgb(30,111,85)"|rgb(30,111,85)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A3201,SRT,"Caudate Nucleus") - CID 7153++
| (G-A101,SRT,"Left")
|-
|58
|right putamen
|style="background:rgb(210,157,166)"|rgb(210,157,166)
|
|
|
|
|
|
|
|
|-
|59
|left putamen
|style="background:rgb(210,157,166)"|rgb(210,157,166)
|
|
|
|
|
|
|
|
|-
|60
|right pallidum
|style="background:rgb(48,129,126)"|rgb(48,129,126)
|
|
|
|
|
|
|
|
|-
|61
|left pallidum
|style="background:rgb(48,129,126)"|rgb(48,129,126)
|
|
|
|
|
|
|
|
|-
|62
|right amygdaloid complex
|style="background:rgb(98,153,112)"|rgb(98,153,112)
|
|
|
|
|
|
|
|
|-
|63
|left amygdaloid complex
|style="background:rgb(98,153,112)"|rgb(98,153,112)
|
|
|
|
|
|
|
|
|-
|64
|diencephalon
|style="background:rgb(69,110,53)"|rgb(69,110,53)
|
|
|
|
|
|
|
|
|-
|65
|thalamus
|style="background:rgb(166,113,137)"|rgb(166,113,137)
|
|
|
|
|
|
|
|
|-
|66
|right thalamus
|style="background:rgb(122,101,38)"|rgb(122,101,38)
|
|
|
|
|
|
|
|
|-
|67
|left thalamus
|style="background:rgb(122,101,38)"|rgb(122,101,38)
|
|
|
|
|
|
|
|
|-
|68
|pineal gland
|style="background:rgb(253,135,192)"|rgb(253,135,192)
|
|
|
|
|
|
|
|
|-
|69
|midbrain
|style="background:rgb(145,92,109)"|rgb(145,92,109)
|
|
|
|
|
|
|
|
|-
|70
|substantia nigra
|style="background:rgb(46,101,131)"|rgb(46,101,131)
|
|
|
|
|
|
|
|
|-
|71
|right substantia nigra
|style="background:rgb(0,108,112)"|rgb(0,108,112)
|
|
|
|
|
|
|
|
|-
|72
|left substantia nigra
|style="background:rgb(0,108,112)"|rgb(0,108,112)
|
|
|
|
|
|
|
|
|-
|73
|cerebral white matter
|style="background:rgb(250,250,225)"|rgb(250,250,225)
|
|
|
|
|
|
|
|
|-
|74
|right superior longitudinal fasciculus
|style="background:rgb(127,150,88)"|rgb(127,150,88)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A2820,SRT,"Superior Longitudinal Fasciculus") - CID 7153++
| (G-A100,SRT,"Right")
|-
|75
|left superior longitudinal fasciculus
|style="background:rgb(127,150,88)"|rgb(127,150,88)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A2820,SRT,"Superior Longitudinal Fasciculus") - CID 7153++
| (G-A101,SRT,"Left")
|-
|76
|right inferior longitudinal fasciculus
|style="background:rgb(159,116,163)"|rgb(159,116,163)
|
|
|
|
|
|
|
|
|-
|77
|left inferior longitudinal fasciculus
|style="background:rgb(159,116,163)"|rgb(159,116,163)
|
|
|
|
|
|
|
|
|-
|78
|right arcuate fasciculus
|style="background:rgb(125,102,154)"|rgb(125,102,154)
| DC: SNOMED needs fixing - specifies arcuate as synonym (ratehr than part of) superior longitudinal fasciculus
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (276650,FMA,"Arcuate Fasciculus") - CID 7153++
| (G-A100,SRT,"Right")
|-
|79
|left arcuate fasciculus
|style="background:rgb(125,102,154)"|rgb(125,102,154)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (276650,FMA,"Arcuate Fasciculus") - CID 7153++
| (G-A101,SRT,"Left")
|-
|80
|right uncinate fasciculus
|style="background:rgb(106,174,155)"|rgb(106,174,155)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A2831,SRT,"Uncinate Fasciculus") - CID 7153++
| (G-A100,SRT,"Right")
|-
|81
|left uncinate fasciculus
|style="background:rgb(106,174,155)"|rgb(106,174,155)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A2831,SRT,"Uncinate Fasciculus") - CID 7153++
| (G-A101,SRT,"Left")
|-
|82
|right cingulum bundle
|style="background:rgb(154,146,83)"|rgb(154,146,83)
|
|
|
|
|
|
|
|
|-
|83
|left cingulum bundle
|style="background:rgb(154,146,83)"|rgb(154,146,83)
|
|
|
|
|
|
|
|
|-
|84
|projection fibers
|style="background:rgb(126,126,55)"|rgb(126,126,55)
|
|
|
|
|
|
|
|
|-
|85
|right corticospinal tract
|style="background:rgb(201,160,133)"|rgb(201,160,133)
|
|
|
|
|
|
|
|
|-
|86
|left corticospinal tract
|style="background:rgb(201,160,133)"|rgb(201,160,133)
|
|
|
|
|
|
|
|
|-
|87
|right optic radiation
|style="background:rgb(78,152,141)"|rgb(78,152,141)
|
|
|
|
|
|
|
|
|-
|88
|left optic radiation
|style="background:rgb(78,152,141)"|rgb(78,152,141)
|
|
|
|
|
|
|
|
|-
|89
|right medial lemniscus
|style="background:rgb(174,140,103)"|rgb(174,140,103)
|
|
|
|
|
|
|
|
|-
|90
|left medial lemniscus
|style="background:rgb(174,140,103)"|rgb(174,140,103)
|
|
|
|
|
|
|
|
|-
|91
|right superior cerebellar peduncle
|style="background:rgb(139,126,177)"|rgb(139,126,177)
|
|
|
|
|
|
|
|
|-
|92
|left superior cerebellar peduncle
|style="background:rgb(139,126,177)"|rgb(139,126,177)
|
|
|
|
|
|
|
|
|-
|93
|right middle cerebellar peduncle
|style="background:rgb(148,120,72)"|rgb(148,120,72)
|
|
|
|
|
|
|
|
|-
|94
|left middle cerebellar peduncle
|style="background:rgb(148,120,72)"|rgb(148,120,72)
|
|
|
|
|
|
|
|
|-
|95
|right inferior cerebellar peduncle
|style="background:rgb(186,135,135)"|rgb(186,135,135)
|
|
|
|
|
|
|
|
|-
|96
|left inferior cerebellar peduncle
|style="background:rgb(186,135,135)"|rgb(186,135,135)
|
|
|
|
|
|
|
|
|-
|97
|optic chiasm
|style="background:rgb(99,106,24)"|rgb(99,106,24)
|
|
|
|
|
|
|
|
|-
|98
|right optic tract
|style="background:rgb(156,171,108)"|rgb(156,171,108)
|
|
|
|
|
|
|
|
|-
|99
|left optic tract
|style="background:rgb(156,171,108)"|rgb(156,171,108)
|
|
|
|
|
|
|
|
|-
|100
|right fornix
|style="background:rgb(64,123,147)"|rgb(64,123,147)
|
|
|
|
|
|
|
|
|-
|101
|left fornix
|style="background:rgb(64,123,147)"|rgb(64,123,147)
|
|
|
|
|
|
|
|
|-
|102
|commissural fibers
|style="background:rgb(138,95,74)"|rgb(138,95,74)
|
|
|
|
|
|
|
|
|-
|103
|corpus callosum
|style="background:rgb(97,113,158)"|rgb(97,113,158)
|
|
|
|
|
|
|
|
|-
|104
|posterior commissure
|style="background:rgb(126,161,197)"|rgb(126,161,197)
|
|
|
|
|
|
|
|
|-
|105
|cerebellar white matter
|style="background:rgb(194,195,164)"|rgb(194,195,164)
|
|
|
|
|
|
| (T-A6080,SRT,"Cerebellar White Matter") - CID 7153++
|
|-
|106
|CSF space
|style="background:rgb(85,188,255)"|rgb(85,188,255)
| DC: cf. 25; is this one supposed to be brain-specific? assume so
|
|
|
|
|
| (T-A0109,SRT,"Brain Cerebrospinal Fluid Pathway") - CID 7153++
|
|-
|107
|ventricles of brain
|style="background:rgb(88,106,215)"|rgb(88,106,215)
|
|
|
|
|
|
|
|
|-
|108
|right lateral ventricle
|style="background:rgb(88,106,215)"|rgb(88,106,215)
|
|
|
|
|
|
|
|
|-
|109
|left lateral ventricle
|style="background:rgb(88,106,215)"|rgb(88,106,215)
|
|
|
|
|
|
|
|
|-
|110
|right third ventricle
|style="background:rgb(88,106,215)"|rgb(88,106,215)
|
|
|
|
|
|
|
|
|-
|111
|left third ventricle
|style="background:rgb(88,106,215)"|rgb(88,106,215)
|
|
|
|
|
|
|
|
|-
|112
|cerebral aqueduct
|style="background:rgb(88,106,215)"|rgb(88,106,215)
|
|
|
|
|
|
|
|
|-
|113
|fourth ventricle
|style="background:rgb(88,106,215)"|rgb(88,106,215)
|
|
|
|
|
|
|
|
|-
|114
|subarachnoid space
|style="background:rgb(88,106,215)"|rgb(88,106,215)
|
|
|
|
|
|
|
|
|-
|115
|spinal cord
|style="background:rgb(244,214,49)"|rgb(244,214,49)
|
|
|
|
|
|
|
|
|-
|116
|gray matter of spinal cord
|style="background:rgb(200,200,215)"|rgb(200,200,215)
| cf. 7 and 39
|
|
|
|
|
| (T-A7020,SRT,"Spinal Cord Gray Matter") - CID 7153++
|
|-
|117
|white matter of spinal cord
|style="background:rgb(250,250,225)"|rgb(250,250,225)
|
|
|
|
|
|
| (T-A7070,SRT,"Spinal Cord White Matter") - CID 7153++
|
|-
|118
|endocrine system of brain
|style="background:rgb(82,174,128)"|rgb(82,174,128)
|
|
|
|
|
|
|
|
|-
|119
|pituitary gland
|style="background:rgb(57,157,110)"|rgb(57,157,110)
|
|
|
|
|
|
|
|
|-
|120
|adenohypophysis
|style="background:rgb(60,143,83)"|rgb(60,143,83)
|
|
|
|
|
|
|
|
|-
|121
|neurohypophysis
|style="background:rgb(92,162,109)"|rgb(92,162,109)
|
|
|
|
|
|
|
|
|-
|122
|meninges
|style="background:rgb(255,244,209)"|rgb(255,244,209)
|
|
|
|
|
|
| (T-A1110,SRT,"Meninges") - CID 7153
|
|-
|123
|dura mater
|style="background:rgb(255,244,209)"|rgb(255,244,209)
|
|
|
|
|
|
|
|
|-
|124
|arachnoid
|style="background:rgb(255,244,209)"|rgb(255,244,209)
|
|
|
|
|
|
|
|
|-
|125
|pia mater
|style="background:rgb(255,244,209)"|rgb(255,244,209)
|
|
|
|
|
|
|
|
|-
|126
|muscles of head
|style="background:rgb(201,121,77)"|rgb(201,121,77)
|
|
|
|
|
|
|
|
|-
|127
|salivary glands
|style="background:rgb(70,163,117)"|rgb(70,163,117)
|
|
|
|
|
|
|
|
|-
|128
|lips
|style="background:rgb(188,91,95)"|rgb(188,91,95)
|
|
|
|
|
|
|
|
|-
|129
|nose
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|130
|tongue
|style="background:rgb(166,84,94)"|rgb(166,84,94)
|
|
|
|
|
|
|
|
|-
|131
|soft palate
|style="background:rgb(182,105,107)"|rgb(182,105,107)
|
|
|
|
|
|
|
|
|-
|132
|right inner ear
|style="background:rgb(229,147,118)"|rgb(229,147,118)
|
|
|
|
|
|
|
|
|-
|133
|left inner ear
|style="background:rgb(229,147,118)"|rgb(229,147,118)
|
|
|
|
|
|
|
|
|-
|134
|right external ear
|style="background:rgb(174,122,90)"|rgb(174,122,90)
|
|
|
|
|
|
|
|
|-
|135
|left external ear
|style="background:rgb(174,122,90)"|rgb(174,122,90)
|
|
|
|
|
|
|
|
|-
|136
|right middle ear
|style="background:rgb(201,112,73)"|rgb(201,112,73)
|
|
|
|
|
|
|
|
|-
|137
|left middle ear
|style="background:rgb(201,112,73)"|rgb(201,112,73)
|
|
|
|
|
|
|
|
|-
|138
|right eyeball
|style="background:rgb(194,142,0)"|rgb(194,142,0)
|
|
|
|
|
|
|
|
|-
|139
|left eyeball
|style="background:rgb(194,142,0)"|rgb(194,142,0)
|
|
|
|
|
|
|
|
|-
|140
|skull
|style="background:rgb(241,213,144)"|rgb(241,213,144)
|
|
|
|
|
|
| (T-11100,SRT,"Skull") - CID 7153
|
|-
|141
|right frontal bone
|style="background:rgb(203,179,77)"|rgb(203,179,77)
|
|
|
|
|
|
|
|
|-
|142
|left frontal bone
|style="background:rgb(203,179,77)"|rgb(203,179,77)
|
|
|
|
|
|
|
|
|-
|143
|right parietal bone
|style="background:rgb(229,204,109)"|rgb(229,204,109)
|
|
|
|
|
|
|
|
|-
|144
|left parietal bone
|style="background:rgb(229,204,109)"|rgb(229,204,109)
|
|
|
|
|
|
|
|
|-
|145
|right temporal bone
|style="background:rgb(255,243,152)"|rgb(255,243,152)
|
|
|
|
|
|
|
|
|-
|146
|left temporal bone
|style="background:rgb(255,243,152)"|rgb(255,243,152)
|
|
|
|
|
|
|
|
|-
|147
|right sphenoid bone
|style="background:rgb(209,185,85)"|rgb(209,185,85)
|
|
|
|
|
|
|
|
|-
|148
|left sphenoid bone
|style="background:rgb(209,185,85)"|rgb(209,185,85)
|
|
|
|
|
|
|
|
|-
|149
|right ethmoid bone
|style="background:rgb(248,223,131)"|rgb(248,223,131)
|
|
|
|
|
|
|
|
|-
|150
|left ethmoid bone
|style="background:rgb(248,223,131)"|rgb(248,223,131)
|
|
|
|
|
|
|
|
|-
|151
|occipital bone
|style="background:rgb(255,230,138)"|rgb(255,230,138)
|
|
|
|
|
|
|
|
|-
|152
|maxilla
|style="background:rgb(196,172,68)"|rgb(196,172,68)
|
|
|
|
|
|
|
|
|-
|153
|right zygomatic bone
|style="background:rgb(255,255,167)"|rgb(255,255,167)
| DC: ? use more general (T-111BE,SRT,"Zygoma"); also, where is the left one ??
| (T-11167,SRT,"Zygomatic arch") - CID 4028
| (G-A100,SRT,"Right")
|
|
|
|
|
|-
|154
|right lacrimal bone
|style="background:rgb(255,250,160)"|rgb(255,250,160)
|
|
|
|
|
|
|
|
|-
|155
|vomer bone
|style="background:rgb(255,237,145)"|rgb(255,237,145)
|
|
|
|
|
|
|
|
|-
|156
|right palatine bone
|style="background:rgb(242,217,123)"|rgb(242,217,123)
|
| (T-111A8,SRT,"Palatine Bone")
| (G-A100,SRT,"Right")
|
|
|
|
|
|-
|157
|left palatine bone
|style="background:rgb(242,217,123)"|rgb(242,217,123)
|
| (T-111A8,SRT,"Palatine Bone")
| (G-A101,SRT,"Left")
|
|
|
|
|
|-
|158
|mandible
|style="background:rgb(222,198,101)"|rgb(222,198,101)
|
|
|
|
|
|
|
|
|-
|159
|neck
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|160
|muscles of neck
|style="background:rgb(213,124,109)"|rgb(213,124,109)
|
|
|
|
|
|
|
|
|-
|161
|pharynx
|style="background:rgb(184,105,108)"|rgb(184,105,108)
|
|
|
|
|
|
|
|
|-
|162
|larynx
|style="background:rgb(150,208,243)"|rgb(150,208,243)
|
|
|
|
|
|
|
|
|-
|163
|thyroid gland
|style="background:rgb(62,162,114)"|rgb(62,162,114)
|
|
|
|
|
|
|
|
|-
|164
|right parathyroid glands
|style="background:rgb(62,162,114)"|rgb(62,162,114)
|
|
|
|
|
|
|
|
|-
|165
|left parathyroid glands
|style="background:rgb(62,162,114)"|rgb(62,162,114)
|
|
|
|
|
|
|
|
|-
|166
|skeleton of neck
|style="background:rgb(242,206,142)"|rgb(242,206,142)
|
|
|
|
|
|
|
|
|-
|167
|hyoid bone
|style="background:rgb(250,210,139)"|rgb(250,210,139)
|
|
|
|
|
|
|
|
|-
|168
|cervical vertebral column
|style="background:rgb(255,255,207)"|rgb(255,255,207)
|
|
|
|
|
|
|
|
|-
|169
|thorax
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|170
|trachea
|style="background:rgb(182,228,255)"|rgb(182,228,255)
|
|
|
|
|
|
|
|
|-
|171
|bronchi
|style="background:rgb(175,216,244)"|rgb(175,216,244)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-26000,SRT,"Bronchi") - CID 7155
|
|-
|172
|right lung
|style="background:rgb(197,165,145)"|rgb(197,165,145)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-28000,SRT,"Lung") - CID 7155
| (G-A100,SRT,"Right")
|-
|173
|left lung
|style="background:rgb(197,165,145)"|rgb(197,165,145)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-28000,SRT,"Lung") - CID 7155
| (G-A101,SRT,"Left")
|-
|174
|superior lobe of right lung
|style="background:rgb(172,138,115)"|rgb(172,138,115)
|
|
|
|
|
|
|
|
|-
|175
|superior lobe of left lung
|style="background:rgb(172,138,115)"|rgb(172,138,115)
|
|
|
|
|
|
|
|
|-
|176
|middle lobe of right lung
|style="background:rgb(202,164,140)"|rgb(202,164,140)
|
|
|
|
|
|
|
|
|-
|177
|inferior lobe of right lung
|style="background:rgb(224,186,162)"|rgb(224,186,162)
|
|
|
|
|
|
|
|
|-
|178
|inferior lobe of left lung
|style="background:rgb(224,186,162)"|rgb(224,186,162)
|
|
|
|
|
|
|
|
|-
|179
|pleura
|style="background:rgb(255,245,217)"|rgb(255,245,217)
|
|
|
|
|
|
|
|
|-
|180
|heart
|style="background:rgb(206,110,84)"|rgb(206,110,84)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-32000,SRT,"Heart") - CID 7152
|
|-
|181
|right atrium
|style="background:rgb(210,115,89)"|rgb(210,115,89)
|
|
|
|
|
|
|
|
|-
|182
|left atrium
|style="background:rgb(203,108,81)"|rgb(203,108,81)
|
|
|
|
|
|
|
|
|-
|183
|atrial septum
|style="background:rgb(233,138,112)"|rgb(233,138,112)
|
|
|
|
|
|
|
|
|-
|184
|ventricular septum
|style="background:rgb(195,100,73)"|rgb(195,100,73)
|
|
|
|
|
|
|
|
|-
|185
|right ventricle of heart
|style="background:rgb(181,85,57)"|rgb(181,85,57)
| DC: SRT code is precordinated; no need for laterality modifier
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-32500,SRT,"Right Ventricle") - CID 7152
|
|-
|186
|left ventricle of heart
|style="background:rgb(152,55,13)"|rgb(152,55,13)
| DC: SRT code is precordinated; no need for laterality modifier
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-32600,SRT,"Left Ventricle") - CID 7152
|
|-
|187
|mitral valve
|style="background:rgb(159,63,27)"|rgb(159,63,27)
|
|
|
|
|
|
|
|
|-
|188
|tricuspid valve
|style="background:rgb(166,70,38)"|rgb(166,70,38)
|
|
|
|
|
|
|
|
|-
|189
|aortic valve
|style="background:rgb(218,123,97)"|rgb(218,123,97)
|
|
|
|
|
|
|
|
|-
|190
|pulmonary valve
|style="background:rgb(225,130,104)"|rgb(225,130,104)
|
|
|
|
|
|
|
|
|-
|191
|aorta
|style="background:rgb(224,97,76)"|rgb(224,97,76)
| DC: ? need specific parts (ascending, arch, descending thoracic, abdominal)
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-42000,SRT,"Aorta") - CID 7152
|
|-
|192
|pericardium
|style="background:rgb(255,244,209)"|rgb(255,244,209)
|
|
|
|
|
|
|
|
|-
|193
|pericardial cavity
|style="background:rgb(184,122,154)"|rgb(184,122,154)
|
|
|
|
|
|
|
|
|-
|194
|esophagus
|style="background:rgb(211,171,143)"|rgb(211,171,143)
|
|
|
|
|
|
|
|
|-
|195
|thymus
|style="background:rgb(47,150,103)"|rgb(47,150,103)
|
|
|
|
|
|
|
|
|-
|196
|mediastinum
|style="background:rgb(255,244,209)"|rgb(255,244,209)
|
|
|
|
|
|
|
|
|-
|197
|skin of thoracic wall
|style="background:rgb(173,121,88)"|rgb(173,121,88)
|
|
|
|
|
|
|
|
|-
|198
|muscles of thoracic wall
|style="background:rgb(188,95,76)"|rgb(188,95,76)
|
|
|
|
|
|
|
|
|-
|199
|skeleton of thorax
|style="background:rgb(255,239,172)"|rgb(255,239,172)
|
|
|
|
|
|
|
|
|-
|200
|thoracic vertebral column
|style="background:rgb(226,202,134)"|rgb(226,202,134)
|
|
|
|
|
|
|
|
|-
|201
|ribs
|style="background:rgb(253,232,158)"|rgb(253,232,158)
|
|
|
|
|
|
|
|
|-
|202
|sternum
|style="background:rgb(244,217,154)"|rgb(244,217,154)
|
|
|
|
|
|
|
|
|-
|203
|right clavicle
|style="background:rgb(205,179,108)"|rgb(205,179,108)
|
|
|
|
|
|
|
|
|-
|204
|left clavicle
|style="background:rgb(205,179,108)"|rgb(205,179,108)
|
|
|
|
|
|
|
|
|-
|205
|abdominal cavity
|style="background:rgb(186,124,161)"|rgb(186,124,161)
|
|
|
|
|
|
|
|
|-
|206
|abdomen
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|207
|peritoneum
|style="background:rgb(255,255,220)"|rgb(255,255,220)
|
|
|
|
|
|
|
|
|-
|208
|omentum
|style="background:rgb(234,234,194)"|rgb(234,234,194)
|
|
|
|
|
|
|
|
|-
|209
|peritoneal cavity
|style="background:rgb(204,142,178)"|rgb(204,142,178)
|
|
|
|
|
|
|
|
|-
|210
|retroperitoneal space
|style="background:rgb(180,119,153)"|rgb(180,119,153)
|
|
|
|
|
|
|
|
|-
|211
|stomach
|style="background:rgb(216,132,105)"|rgb(216,132,105)
|
|
|
|
|
|
|
|
|-
|212
|duodenum
|style="background:rgb(255,253,229)"|rgb(255,253,229)
|
|
|
|
|
|
|
|
|-
|213
|small bowel
|style="background:rgb(205,167,142)"|rgb(205,167,142)
|
|
|
|
|
|
|
|
|-
|214
|colon
|style="background:rgb(204,168,143)"|rgb(204,168,143)
|
|
|
|
|
|
|
|
|-
|215
|anus
|style="background:rgb(255,224,199)"|rgb(255,224,199)
|
|
|
|
|
|
|
|
|-
|216
|liver
|style="background:rgb(221,130,101)"|rgb(221,130,101)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-62000,SRT,"Liver") - CID 7154
|
|-
|217
|biliary tree
|style="background:rgb(0,145,30)"|rgb(0,145,30)
|
|
|
|
|
|
|
|
|-
|218
|gallbladder
|style="background:rgb(139,150,98)"|rgb(139,150,98)
|
|
|
|
|
|
|
|
|-
|219
|pancreas
|style="background:rgb(249,180,111)"|rgb(249,180,111)
|
|
|
|
|
|
|
|
|-
|220
|spleen
|style="background:rgb(157,108,162)"|rgb(157,108,162)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-C3000,SRT,"Spleen) - CID 7154
|
|-
|221
|urinary system
|style="background:rgb(203,136,116)"|rgb(203,136,116)
|
|
|
|
|
|
|
|
|-
|222
|right kidney
|style="background:rgb(185,102,83)"|rgb(185,102,83)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-71000,SRT,"Kidney") - CID 7154
| (G-A100,SRT,"Right")
|-
|223
|left kidney
|style="background:rgb(185,102,83)"|rgb(185,102,83)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-71000,SRT,"Kidney") - CID 7154
| (G-A101,SRT,"Left")
|-
|224
|right ureter
|style="background:rgb(247,182,164)"|rgb(247,182,164)
|
|
|
|
|
|
|
|
|-
|225
|left ureter
|style="background:rgb(247,182,164)"|rgb(247,182,164)
|
|
|
|
|
|
|
|
|-
|226
|urinary bladder
|style="background:rgb(222,154,132)"|rgb(222,154,132)
|
|
|
|
|
|
|
|
|-
|227
|urethra
|style="background:rgb(124,186,223)"|rgb(124,186,223)
|
|
|
|
|
|
|
|
|-
|228
|right adrenal gland
|style="background:rgb(249,186,150)"|rgb(249,186,150)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-B3000,SRT,"Adrenal Gland")
| (G-A100,SRT,"Right")
|-
|229
|left adrenal gland
|style="background:rgb(249,186,150)"|rgb(249,186,150)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-B3000,SRT,"Adrenal Gland")
| (G-A101,SRT,"Left")
|-
|230
|female internal genitalia
|style="background:rgb(244,170,147)"|rgb(244,170,147)
|
|
|
|
|
|
|
|
|-
|231
|uterus
|style="background:rgb(255,181,158)"|rgb(255,181,158)
|
|
|
|
|
|
|
|
|-
|232
|right fallopian tube
|style="background:rgb(255,190,165)"|rgb(255,190,165)
|
|
|
|
|
|
|
|
|-
|233
|left fallopian tube
|style="background:rgb(227,153,130)"|rgb(227,153,130)
|
|
|
|
|
|
|
|
|-
|234
|right ovary
|style="background:rgb(213,141,113)"|rgb(213,141,113)
|
|
|
|
|
|
|
|
|-
|235
|left ovary
|style="background:rgb(213,141,113)"|rgb(213,141,113)
|
|
|
|
|
|
|
|
|-
|236
|vagina
|style="background:rgb(193,123,103)"|rgb(193,123,103)
|
|
|
|
|
|
|
|
|-
|237
|male internal genitalia
|style="background:rgb(216,146,127)"|rgb(216,146,127)
|
|
|
|
|
|
|
|
|-
|238
|prostate
|style="background:rgb(230,158,140)"|rgb(230,158,140)
|
|
|
|
|
|
|
|
|-
|239
|right seminal vesicle
|style="background:rgb(245,172,147)"|rgb(245,172,147)
|
|
|
|
|
|
|
|
|-
|240
|left seminal vesicle
|style="background:rgb(245,172,147)"|rgb(245,172,147)
|
|
|
|
|
|
|
|
|-
|241
|right deferent duct
|style="background:rgb(241,172,151)"|rgb(241,172,151)
|
|
|
|
|
|
|
|
|-
|242
|left deferent duct
|style="background:rgb(241,172,151)"|rgb(241,172,151)
|
|
|
|
|
|
|
|
|-
|243
|skin of abdominal wall
|style="background:rgb(177,124,92)"|rgb(177,124,92)
|
|
|
|
|
|
|
|
|-
|244
|muscles of abdominal wall
|style="background:rgb(171,85,68)"|rgb(171,85,68)
|
|
|
|
|
|
|
|
|-
|245
|skeleton of abdomen
|style="background:rgb(217,198,131)"|rgb(217,198,131)
|
|
|
|
|
|
|
|
|-
|246
|lumbar vertebral column
|style="background:rgb(212,188,102)"|rgb(212,188,102)
|
|
|
|
|
|
|
|
|-
|247
|female external genitalia
|style="background:rgb(185,135,134)"|rgb(185,135,134)
|
|
|
|
|
|
|
|
|-
|248
|male external genitalia
|style="background:rgb(185,135,134)"|rgb(185,135,134)
|
|
|
|
|
|
|
|
|-
|249
|skeleton of upper limb
|style="background:rgb(198,175,125)"|rgb(198,175,125)
|
|
|
|
|
|
|
|
|-
|250
|muscles of upper limb
|style="background:rgb(194,98,79)"|rgb(194,98,79)
|
|
|
|
|
|
|
|
|-
|251
|right upper limb
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|252
|left upper limb
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|253
|right shoulder
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|254
|left shoulder
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|255
|right arm
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|256
|left arm
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|257
|right elbow
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|258
|left elbow
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|259
|right forearm
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|260
|left forearm
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|261
|right wrist
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|262
|left wrist
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|263
|right hand
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|264
|left hand
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|265
|skeleton of lower limb
|style="background:rgb(255,238,170)"|rgb(255,238,170)
|
|
|
|
|
|
|
|
|-
|266
|muscles of lower limb
|style="background:rgb(206,111,93)"|rgb(206,111,93)
|
|
|
|
|
|
|
|
|-
|267
|right lower limb
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|268
|left lower limb
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|269
|right hip
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|270
|left hip
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|271
|right thigh
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|272
|left thigh
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|273
|right knee
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|274
|left knee
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|275
|right leg
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|276
|left leg
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|277
|right foot
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|278
|left foot
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|279
|peripheral nervous system
|style="background:rgb(216,186,0)"|rgb(216,186,0)
|
|
|
|
|
|
|
|
|-
|280
|autonomic nerve
|style="background:rgb(255,226,77)"|rgb(255,226,77)
|
|
|
|
|
|
|
|
|-
|281
|sympathetic trunk
|style="background:rgb(255,243,106)"|rgb(255,243,106)
|
|
|
|
|
|
|
|
|-
|282
|cranial nerves
|style="background:rgb(255,234,92)"|rgb(255,234,92)
|
|
|
|
|
|
|
|
|-
|283
|vagus nerve
|style="background:rgb(240,210,35)"|rgb(240,210,35)
|
|
|
|
|
|
|
|
|-
|284
|peripheral nerve
|style="background:rgb(224,194,0)"|rgb(224,194,0)
|
|
|
|
|
|
|
|
|-
|285
|circulatory system
|style="background:rgb(213,99,79)"|rgb(213,99,79)
|
|
|
|
|
|
|
|
|-
|286
|systemic arterial system
|style="background:rgb(217,102,81)"|rgb(217,102,81)
|
|
|
|
|
|
|
|
|-
|287
|systemic venous system
|style="background:rgb(0,147,202)"|rgb(0,147,202)
|
|
|
|
|
|
|
|
|-
|288
|pulmonary arterial system
|style="background:rgb(0,122,171)"|rgb(0,122,171)
|
|
|
|
|
|
|
|
|-
|289
|pulmonary venous system
|style="background:rgb(186,77,64)"|rgb(186,77,64)
|
|
|
|
|
|
|
|
|-
|290
|lymphatic system
|style="background:rgb(111,197,131)"|rgb(111,197,131)
|
|
|
|
|
|
|
|
|-
|291
|needle
|style="background:rgb(240,255,30)"|rgb(240,255,30)
|
|
|
|
|
| (A-00004,SRT,"Physical Object")
| (A-30360,SRT,"Needle") - CID 7157++
|
|-
|292
|region 0
|style="background:rgb(185,232,61)"|rgb(185,232,61)
|
|
|
|
|
|
|
|
|-
|293
|region 1
|style="background:rgb(0,226,255)"|rgb(0,226,255)
|
|
|
|
|
|
|
|
|-
|294
|region 2
|style="background:rgb(251,159,255)"|rgb(251,159,255)
|
|
|
|
|
|
|
|
|-
|295
|region 3
|style="background:rgb(230,169,29)"|rgb(230,169,29)
|
|
|
|
|
|
|
|
|-
|296
|region 4
|style="background:rgb(0,194,113)"|rgb(0,194,113)
|
|
|
|
|
|
|
|
|-
|297
|region 5
|style="background:rgb(104,160,249)"|rgb(104,160,249)
|
|
|
|
|
|
|
|
|-
|298
|region 6
|style="background:rgb(221,108,158)"|rgb(221,108,158)
|
|
|
|
|
|
|
|
|-
|299
|region 7
|style="background:rgb(137,142,0)"|rgb(137,142,0)
|
|
|
|
|
|
|
|
|-
|300
|region 8
|style="background:rgb(230,70,0)"|rgb(230,70,0)
|
|
|
|
|
|
|
|
|-
|301
|region 9
|style="background:rgb(0,147,0)"|rgb(0,147,0)
|
|
|
|
|
|
|
|
|-
|302
|region 10
|style="background:rgb(0,147,248)"|rgb(0,147,248)
|
|
|
|
|
|
|
|
|-
|303
|region 11
|style="background:rgb(231,0,206)"|rgb(231,0,206)
|
|
|
|
|
|
|
|
|-
|304
|region 12
|style="background:rgb(129,78,0)"|rgb(129,78,0)
|
|
|
|
|
|
|
|
|-
|305
|region 13
|style="background:rgb(0,116,0)"|rgb(0,116,0)
|
|
|
|
|
|
|
|
|-
|306
|region 14
|style="background:rgb(0,0,255)"|rgb(0,0,255)
|
|
|
|
|
|
|
|
|-
|307
|region 15
|style="background:rgb(157,0,0)"|rgb(157,0,0)
|
|
|
|
|
|
|
|
|-
|308
|unknown
|style="background:rgb(100,100,130)"|rgb(100,100,130)
|
|
|
|
|
|
|
|
|-
|309
|cyst
|style="background:rgb(205,205,100)"|rgb(205,205,100)
|
|
|
|
|
|
|
|
|-
|}

==New labels added==

{| class="wikitable sortable labelpage labelpagetable" border="1"
! integer_label
! text_label
! color
! notes
! anatomic region
! anatomic region modifier
! primary anatomic structure
! primary anatomic structure modifier
! segmented property category - CID 7150
! segmented property type
! segmented property type modifier
|-
| ??
|rectum
|style="background:rgb(0,0,0);color:white"|rgba(?,?,?,?)
|
|
|
|
|
| (M-01000,SRT,"Morphologically Altered Structure")
| (M-3340A,SRT,"Cyst") - CID 7159
|
|-
| ??
| left testis
|style="background:rgb(0,0,0);color:white"|rgba(?,?,?,?)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-94000,SRT,"Testis") - CID 7160
|
|-
| ??
| right testis
|style="background:rgb(0,0,0);color:white"|rgba(?,?,?,?)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-94000,SRT,"Testis") - CID 7160
|
|-
| ??
| cervix
|style="background:rgb(0,0,0);color:white"|rgba(?,?,?,?)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-83200,SRT,"Cervix") - CID 7160
|
|-
| ??
| diaphragm
|style="background:rgb(0,0,0);color:white"|rgba(?,?,?,?)
| DC: ? need left/right - probably not
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-D3400,SRT,"Diaphragm) - CID 7155
|
|-
| ??
| table
|style="background:rgb(0,0,0);color:white"|rgba(?,?,?,?)
| DC: cf. 9 - table detection is handled specifically by some systems
|
|
|
|
| (A-00004,SRT,"Physical Object")
| (A-17350,SRT,"Table") - CID 7158
|
|-
| ??
| clothing
|style="background:rgb(0,0,0);color:white"|rgba(?,?,?,?)
| cf. 9
|
|
|
|
| (A-00004,SRT,"Physical Object")
| (A-00916,SRT,"Clothing") - CID 7158
|
|-
|}

Segmentation objects allow to encode recommended display color in "Recommended Display CIELab Value" (0062,000D) attribute; these values are encoded in [http://en.wikipedia.org/wiki/Lab_color_space CIALab].

Projects:QIN:3D Slicer Annotation Image Markup:Standard Terminology

2012-09-18T13:09:24Z

Dclunie: /* Original labels categorized */

This is a collection of relevant pieces from:
* http://medical.nema.org/Dicom/2011/11_03pu.pdf
* http://medical.nema.org/Dicom/2011/11_16pu.pdf

=Segmentation image module attributes=

Segmentation image module attributes must in particular include the following (PS 3.3-2011, p.989):

[[Image:PS3.3-SegmentationAttributes.png]]

[[Image:PS3.3-CodedEntryData.png]]

==Code sequence attributes==

[[Image:PS3.3-CodeSequenceAttributes.png]]

==General Anatomy Macro==

The General Anatomy Macro is defined as follows (PS 3.3-2011, p.96):

[[Image:PS3.3-GeneralAnatomyMacro.png]]

==Coding Scheme Designators==

[[Image:PS3.3-CodingSchemeDesignators1.png]]

[[Image:PS3.3-CodingSchemeDesignators2.png]]

NOTE: this table is incomplete, consult PS 3.16-2011 p.43.

=RadLex=
* General information: http://rsna.org/RadLex.aspx
* License: http://rsna.org/uploadedFiles/RSNA/Content/Informatics/radlex_public_license_version_1-0-1.pdf
* Example hierarchy of the term mapping from RadLex browser (liver: http://www.radlex.org/RID/RID13419):

[[Image:RadLex_RID13419.png]]

=SNOMED=

David Clunie in email communication Sept 17, 2012:
<pre>
[...] The [DICOM] agreement with SNOMED
is to allow any implementer to use the terms included in DICOM in their
implementations and products without fee; it is not just to be able to
include them in the text of the standard documents.

So, since Slicer would be using the concepts to include in a DICOM SEG
object, you do not need any additional agreement, nor any agreement with
SNOMED to distribute the source code (my PixelMed Java DICOM toolkit is
full of SNOMED codes, for example, and I neither have not need such an
additional agreement).
</pre>

=Mapping Slicer GeneralAnatomy LUT to Standard Terminology (work in progress)=
Original GeneralAnatomy LUT see here: http://www.slicer.org/slicerWiki/index.php/Slicer3:2010_GenericAnatomyColors

==Original labels categorized==

{| class="wikitable sortable labelpage labelpagetable" border="1"
! integer_label
! text_label
! color
! notes
! anatomic region
! anatomic region modifier
! primary anatomic structure
! primary anatomic structure modifier
! segmented property category - CID 7150
! segmented property type
! segmented property type modifier
|-
|0
|background
|style="background:rgb(0,0,0);color:white"|rgba(0,0,0,0)
|
|
|
|
|
|
|
|
|-
|1
|tissue
|style="background:rgb(128,174,128)"|rgb(128,174,128)
| Default label for bodily tissues
|
|
|
|
| (T-D0050,SRT,"Tissue")
|
|
|-
|2
|bone
|style="background:rgb(241,214,145)"|rgb(241,214,145)
|
|
|
|
|
| (T-D0050,SRT,"Tissue")
| (T-D016E,SRT,"Bone")
|
|-
|3
|skin
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|4
|connective tissue
|style="background:rgb(111,184,210)"|rgb(111,184,210)
|
|
|
|
|
|
|
|
|-
|5
|blood
|style="background:rgb(216,101,79)"|rgb(216,101,79)
|
|
|
|
|
|
|
|
|-
|6
|organ
|style="background:rgb(221,130,101)"|rgb(221,130,101)
|
|
|
|
|
|
|
|
|-
|7
|mass
|style="background:rgb(144,238,144)"|rgb(144,238,144)
| Could be tumor or other lesion
|
|
|
|
| (M-01000,SRT,"Morphologically Altered Structure")
| (M-03000,SRT,"Mass") - CID 7159++
|
|-
|8
|muscle
|style="background:rgb(192,104,88)"|rgb(192,104,88)
|
|
|
|
|
| (T-D0050,SRT,"Tissue")
| (T-13001,SRT,"Muscle") - CID 7160 (should refactor)
|
|-
|9
|foreign object
|style="background:rgb(220,245,20)"|rgb(220,245,20)
| Implants, surical instruments, table...
|
|
|
|
| (A-00004,SRT,"Physical Object")
| (M-30400,SRT,"Foreign Body")
|
|-
|10
|waste
|style="background:rgb(78,63,0)"|rgb(78,63,0)
|
|
|
|
|
|
|
|
|-
|11
|teeth
|style="background:rgb(255,250,220)"|rgb(255,250,220)
|
|
|
|
|
|
|
|
|-
|12
|fat
|style="background:rgb(230,220,70)"|rgb(230,220,70)
|
|
|
|
|
|
|
|
|-
|13
|gray matter
|style="background:rgb(200,200,235)"|rgb(200,200,235)
| cf. 39 and 116
|
|
|
|
| (T-D0050,SRT,"Tissue")
| (T-A0096,SRT,"Gray Matter") - CID 7153 Edited
|
|-
|14
|white matter
|style="background:rgb(250,250,210)"|rgb(250,250,210)
|
|
|
|
|
| (T-D0050,SRT,"Tissue")
| (T-A0095,SRT,"White Matter") - CID 7153 Edited
|
|-
|15
|nerve
|style="background:rgb(244,214,49)"|rgb(244,214,49)
|
|
|
|
|
|
|
|
|-
|16
|vein
|style="background:rgb(0,151,206)"|rgb(0,151,206)
|
|
|
|
|
|
|
|
|-
|17
|artery
|style="background:rgb(216,101,79)"|rgb(216,101,79)
|
|
|
|
|
|
|
|
|-
|18
|capillary
|style="background:rgb(183,156,220)"|rgb(183,156,220)
|
|
|
|
|
|
|
|
|-
|19
|ligament
|style="background:rgb(183,214,211)"|rgb(183,214,211)
|
|
|
|
|
|
|
|
|-
|20
|tendon
|style="background:rgb(152,189,207)"|rgb(152,189,207)
|
|
|
|
|
|
|
|
|-
|21
|cartilage
|style="background:rgb(111,184,210)"|rgb(111,184,210)
|
|
|
|
|
|
|
|
|-
|22
|meniscus
|style="background:rgb(178,212,242)"|rgb(178,212,242)
|
|
|
|
|
|
|
|
|-
|23
|lymph node
|style="background:rgb(68,172,100)"|rgb(68,172,100)
|
|
|
|
|
|
|
|
|-
|24
|lymphatic vessel
|style="background:rgb(111,197,131)"|rgb(111,197,131)
|
|
|
|
|
|
|
|
|-
|25
|cerebro-spinal fluid
|style="background:rgb(85,188,255)"|rgb(85,188,255)
| cf. 106
|
|
|
|
| (T-D0050,SRT,"Tissue")
| (T-A1000,SRT,"Cerebrospinal Fluid") - CID 7153
|
|-
|26
|bile
|style="background:rgb(0,145,30)"|rgb(0,145,30)
|
|
|
|
|
|
|
|
|-
|27
|urine
|style="background:rgb(214,230,130)"|rgb(214,230,130)
|
|
|
|
|
|
|
|
|-
|28
|feces
|style="background:rgb(78,63,0)"|rgb(78,63,0)
|
|
|
|
|
|
|
|
|-
|29
|gas
|style="background:rgb(218,255,255)"|rgb(218,255,255)
|
|
|
|
|
|
|
|
|-
|30
|fluid
|style="background:rgb(170,250,250)"|rgb(170,250,250)
|
|
|
|
|
|
|
|
|-
|31
|edema
|style="background:rgb(140,224,228)"|rgb(140,224,228)
|
|
|
|
|
| (M-01000,SRT,"Morphologically Altered Structure")
| (M-36300,SRT,"Edema") - CID 7159++
|
|-
|32
|bleeding
|style="background:rgb(188,65,28)"|rgb(188,65,28)
|
|
|
|
|
| (M-01000,SRT,"Morphologically Altered Structure")
| (M-37000,SRT,"Hemorrhage") - CID 7159++
|
|-
|33
|necrosis
|style="background:rgb(216,191,216)"|rgb(216,191,216)
|
|
|
|
|
| (M-01000,SRT,"Morphologically Altered Structure")
| (M-54000,SRT,"Necrosis") - CID 7159
|
|-
|34
|clot
|style="background:rgb(145,60,66)"|rgb(145,60,66)
|
|
|
|
|
| (M-01000,SRT,"Morphologically Altered Structure")
| (M-35000,SRT,"Blood Clot") - CID 7159++
|
|-
|35
|embolism
|style="background:rgb(150,98,83)"|rgb(150,98,83)
|
|
|
|
|
| (M-01000,SRT,"Morphologically Altered Structure")
| (M-35300,SRT,"Embolus") - CID 7159++
|
|-
|36
|head
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|37
|central nervous system
|style="background:rgb(244,214,49)"|rgb(244,214,49)
|
|
|
|
|
|
|
|
|-
|38
|brain
|style="background:rgb(250,250,225)"|rgb(250,250,225)
|
|
|
|
|
| ? tissue or structure
| (T-A0100,SRT,"Brain") - CID 7153++
|
|-
|39
|gray matter of brain
|style="background:rgb(200,200,215)"|rgb(200,200,215)
| cf. 13 and 116
|
|
|
|
| (T-D0050,SRT,"Tissue")
| (T-A2020,SRT,"Cerebral Gray Matter") - CID 7153 Edited
|
|-
|40
|telencephalon
|style="background:rgb(68,131,98)"|rgb(68,131,98)
|
|
|
|
|
|
|
|
|-
|41
|cerebral cortex
|style="background:rgb(128,174,128)"|rgb(128,174,128)
|
|
|
|
|
|
|
|
|-
|42
|right frontal lobe
|style="background:rgb(83,146,164)"|rgb(83,146,164)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A2218,SRT,"Frontal Lobe") - CID 7153++
| (G-A100,SRT,"Right")
|-
|43
|left frontal lobe
|style="background:rgb(83,146,164)"|rgb(83,146,164)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A2218,SRT,"Frontal Lobe") - CID 7153++
| (G-A101,SRT,"Left")
|-
|44
|right temporal lobe
|style="background:rgb(162,115,105)"|rgb(162,115,105)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A2513,SRT,"Temporal Lobe") - CID 7153++
| (G-A100,SRT,"Right")
|-
|45
|left temporal lobe
|style="background:rgb(162,115,105)"|rgb(162,115,105)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A2513,SRT,"Temporal Lobe") - CID 7153++
| (G-A101,SRT,"Left")
|-
|46
|right parietal lobe
|style="background:rgb(141,93,137)"|rgb(141,93,137)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A230F,SRT,"Parietal Lobe") - CID 7153++
| (G-A100,SRT,"Right")
|-
|47
|left parietal lobe
|style="background:rgb(141,93,137)"|rgb(141,93,137)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A230F,SRT,"Parietal Lobe") - CID 7153++
| (G-A101,SRT,"Left")
|-
|48
|right occipital lobe
|style="background:rgb(182,166,110)"|rgb(182,166,110)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A240F,SRT,"Occipital Lobe") - CID 7153++
| (G-A100,SRT,"Right")
|-
|49
|left occipital lobe
|style="background:rgb(182,166,110)"|rgb(182,166,110)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A240F,SRT,"Occipital Lobe") - CID 7153++
| (G-A101,SRT,"Left")
|-
|50
|right insular lobe
|style="background:rgb(188,135,166)"|rgb(188,135,166)
|
|
|
|
|
|
|
|
|-
|51
|left insular lobe
|style="background:rgb(188,135,166)"|rgb(188,135,166)
|
|
|
|
|
|
|
|
|-
|52
|right limbic lobe
|style="background:rgb(154,150,201)"|rgb(154,150,201)
|
|
|
|
|
|
|
|
|-
|53
|left limbic lobe
|style="background:rgb(154,150,201)"|rgb(154,150,201)
|
|
|
|
|
|
|
|
|-
|54
|right striatum
|style="background:rgb(177,140,190)"|rgb(177,140,190)
|
|
|
|
|
|
|
|
|-
|55
|left striatum
|style="background:rgb(177,140,190)"|rgb(177,140,190)
|
|
|
|
|
|
|
|
|-
|56
|right caudate nucleus
|style="background:rgb(30,111,85)"|rgb(30,111,85)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A3201,SRT,"Caudate Nucleus") - CID 7153++
| (G-A100,SRT,"Right")
|-
|57
|left caudate nucleus
|style="background:rgb(30,111,85)"|rgb(30,111,85)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A3201,SRT,"Caudate Nucleus") - CID 7153++
| (G-A101,SRT,"Left")
|-
|58
|right putamen
|style="background:rgb(210,157,166)"|rgb(210,157,166)
|
|
|
|
|
|
|
|
|-
|59
|left putamen
|style="background:rgb(210,157,166)"|rgb(210,157,166)
|
|
|
|
|
|
|
|
|-
|60
|right pallidum
|style="background:rgb(48,129,126)"|rgb(48,129,126)
|
|
|
|
|
|
|
|
|-
|61
|left pallidum
|style="background:rgb(48,129,126)"|rgb(48,129,126)
|
|
|
|
|
|
|
|
|-
|62
|right amygdaloid complex
|style="background:rgb(98,153,112)"|rgb(98,153,112)
|
|
|
|
|
|
|
|
|-
|63
|left amygdaloid complex
|style="background:rgb(98,153,112)"|rgb(98,153,112)
|
|
|
|
|
|
|
|
|-
|64
|diencephalon
|style="background:rgb(69,110,53)"|rgb(69,110,53)
|
|
|
|
|
|
|
|
|-
|65
|thalamus
|style="background:rgb(166,113,137)"|rgb(166,113,137)
|
|
|
|
|
|
|
|
|-
|66
|right thalamus
|style="background:rgb(122,101,38)"|rgb(122,101,38)
|
|
|
|
|
|
|
|
|-
|67
|left thalamus
|style="background:rgb(122,101,38)"|rgb(122,101,38)
|
|
|
|
|
|
|
|
|-
|68
|pineal gland
|style="background:rgb(253,135,192)"|rgb(253,135,192)
|
|
|
|
|
|
|
|
|-
|69
|midbrain
|style="background:rgb(145,92,109)"|rgb(145,92,109)
|
|
|
|
|
|
|
|
|-
|70
|substantia nigra
|style="background:rgb(46,101,131)"|rgb(46,101,131)
|
|
|
|
|
|
|
|
|-
|71
|right substantia nigra
|style="background:rgb(0,108,112)"|rgb(0,108,112)
|
|
|
|
|
|
|
|
|-
|72
|left substantia nigra
|style="background:rgb(0,108,112)"|rgb(0,108,112)
|
|
|
|
|
|
|
|
|-
|73
|cerebral white matter
|style="background:rgb(250,250,225)"|rgb(250,250,225)
|
|
|
|
|
|
|
|
|-
|74
|right superior longitudinal fasciculus
|style="background:rgb(127,150,88)"|rgb(127,150,88)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A2820,SRT,"Superior Longitudinal Fasciculus") - CID 7153++
| (G-A100,SRT,"Right")
|-
|75
|left superior longitudinal fasciculus
|style="background:rgb(127,150,88)"|rgb(127,150,88)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A2820,SRT,"Superior Longitudinal Fasciculus") - CID 7153++
| (G-A101,SRT,"Left")
|-
|76
|right inferior longitudinal fasciculus
|style="background:rgb(159,116,163)"|rgb(159,116,163)
|
|
|
|
|
|
|
|
|-
|77
|left inferior longitudinal fasciculus
|style="background:rgb(159,116,163)"|rgb(159,116,163)
|
|
|
|
|
|
|
|
|-
|78
|right arcuate fasciculus
|style="background:rgb(125,102,154)"|rgb(125,102,154)
| DC: SNOMED needs fixing - specifies arcuate as synonym (ratehr than part of) superior longitudinal fasciculus
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (276650,FMA,"Arcuate Fasciculus") - CID 7153++
| (G-A100,SRT,"Right")
|-
|79
|left arcuate fasciculus
|style="background:rgb(125,102,154)"|rgb(125,102,154)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (276650,FMA,"Arcuate Fasciculus") - CID 7153++
| (G-A101,SRT,"Left")
|-
|80
|right uncinate fasciculus
|style="background:rgb(106,174,155)"|rgb(106,174,155)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A2831,SRT,"Uncinate Fasciculus") - CID 7153++
| (G-A100,SRT,"Right")
|-
|81
|left uncinate fasciculus
|style="background:rgb(106,174,155)"|rgb(106,174,155)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A2831,SRT,"Uncinate Fasciculus") - CID 7153++
| (G-A101,SRT,"Left")
|-
|82
|right cingulum bundle
|style="background:rgb(154,146,83)"|rgb(154,146,83)
|
|
|
|
|
|
|
|
|-
|83
|left cingulum bundle
|style="background:rgb(154,146,83)"|rgb(154,146,83)
|
|
|
|
|
|
|
|
|-
|84
|projection fibers
|style="background:rgb(126,126,55)"|rgb(126,126,55)
|
|
|
|
|
|
|
|
|-
|85
|right corticospinal tract
|style="background:rgb(201,160,133)"|rgb(201,160,133)
|
|
|
|
|
|
|
|
|-
|86
|left corticospinal tract
|style="background:rgb(201,160,133)"|rgb(201,160,133)
|
|
|
|
|
|
|
|
|-
|87
|right optic radiation
|style="background:rgb(78,152,141)"|rgb(78,152,141)
|
|
|
|
|
|
|
|
|-
|88
|left optic radiation
|style="background:rgb(78,152,141)"|rgb(78,152,141)
|
|
|
|
|
|
|
|
|-
|89
|right medial lemniscus
|style="background:rgb(174,140,103)"|rgb(174,140,103)
|
|
|
|
|
|
|
|
|-
|90
|left medial lemniscus
|style="background:rgb(174,140,103)"|rgb(174,140,103)
|
|
|
|
|
|
|
|
|-
|91
|right superior cerebellar peduncle
|style="background:rgb(139,126,177)"|rgb(139,126,177)
|
|
|
|
|
|
|
|
|-
|92
|left superior cerebellar peduncle
|style="background:rgb(139,126,177)"|rgb(139,126,177)
|
|
|
|
|
|
|
|
|-
|93
|right middle cerebellar peduncle
|style="background:rgb(148,120,72)"|rgb(148,120,72)
|
|
|
|
|
|
|
|
|-
|94
|left middle cerebellar peduncle
|style="background:rgb(148,120,72)"|rgb(148,120,72)
|
|
|
|
|
|
|
|
|-
|95
|right inferior cerebellar peduncle
|style="background:rgb(186,135,135)"|rgb(186,135,135)
|
|
|
|
|
|
|
|
|-
|96
|left inferior cerebellar peduncle
|style="background:rgb(186,135,135)"|rgb(186,135,135)
|
|
|
|
|
|
|
|
|-
|97
|optic chiasm
|style="background:rgb(99,106,24)"|rgb(99,106,24)
|
|
|
|
|
|
|
|
|-
|98
|right optic tract
|style="background:rgb(156,171,108)"|rgb(156,171,108)
|
|
|
|
|
|
|
|
|-
|99
|left optic tract
|style="background:rgb(156,171,108)"|rgb(156,171,108)
|
|
|
|
|
|
|
|
|-
|100
|right fornix
|style="background:rgb(64,123,147)"|rgb(64,123,147)
|
|
|
|
|
|
|
|
|-
|101
|left fornix
|style="background:rgb(64,123,147)"|rgb(64,123,147)
|
|
|
|
|
|
|
|
|-
|102
|commissural fibers
|style="background:rgb(138,95,74)"|rgb(138,95,74)
|
|
|
|
|
|
|
|
|-
|103
|corpus callosum
|style="background:rgb(97,113,158)"|rgb(97,113,158)
|
|
|
|
|
|
|
|
|-
|104
|posterior commissure
|style="background:rgb(126,161,197)"|rgb(126,161,197)
|
|
|
|
|
|
|
|
|-
|105
|cerebellar white matter
|style="background:rgb(194,195,164)"|rgb(194,195,164)
|
|
|
|
|
|
| (T-A6080,SRT,"Cerebellar White Matter") - CID 7153++
|
|-
|106
|CSF space
|style="background:rgb(85,188,255)"|rgb(85,188,255)
| DC: cf. 25; is this one supposed to be brain-specific? assume so
|
|
|
|
|
| (T-A0109,SRT,"Brain Cerebrospinal Fluid Pathway") - CID 7153++
|
|-
|107
|ventricles of brain
|style="background:rgb(88,106,215)"|rgb(88,106,215)
|
|
|
|
|
|
|
|
|-
|108
|right lateral ventricle
|style="background:rgb(88,106,215)"|rgb(88,106,215)
|
|
|
|
|
|
|
|
|-
|109
|left lateral ventricle
|style="background:rgb(88,106,215)"|rgb(88,106,215)
|
|
|
|
|
|
|
|
|-
|110
|right third ventricle
|style="background:rgb(88,106,215)"|rgb(88,106,215)
|
|
|
|
|
|
|
|
|-
|111
|left third ventricle
|style="background:rgb(88,106,215)"|rgb(88,106,215)
|
|
|
|
|
|
|
|
|-
|112
|cerebral aqueduct
|style="background:rgb(88,106,215)"|rgb(88,106,215)
|
|
|
|
|
|
|
|
|-
|113
|fourth ventricle
|style="background:rgb(88,106,215)"|rgb(88,106,215)
|
|
|
|
|
|
|
|
|-
|114
|subarachnoid space
|style="background:rgb(88,106,215)"|rgb(88,106,215)
|
|
|
|
|
|
|
|
|-
|115
|spinal cord
|style="background:rgb(244,214,49)"|rgb(244,214,49)
|
|
|
|
|
|
|
|
|-
|116
|gray matter of spinal cord
|style="background:rgb(200,200,215)"|rgb(200,200,215)
| cf. 7 and 39
|
|
|
|
|
| (T-A7020,SRT,"Spinal Cord Gray Matter") - CID 7153++
|
|-
|117
|white matter of spinal cord
|style="background:rgb(250,250,225)"|rgb(250,250,225)
|
|
|
|
|
|
| (T-A7070,SRT,"Spinal Cord White Matter") - CID 7153++
|
|-
|118
|endocrine system of brain
|style="background:rgb(82,174,128)"|rgb(82,174,128)
|
|
|
|
|
|
|
|
|-
|119
|pituitary gland
|style="background:rgb(57,157,110)"|rgb(57,157,110)
|
|
|
|
|
|
|
|
|-
|120
|adenohypophysis
|style="background:rgb(60,143,83)"|rgb(60,143,83)
|
|
|
|
|
|
|
|
|-
|121
|neurohypophysis
|style="background:rgb(92,162,109)"|rgb(92,162,109)
|
|
|
|
|
|
|
|
|-
|122
|meninges
|style="background:rgb(255,244,209)"|rgb(255,244,209)
|
|
|
|
|
|
| (T-A1110,SRT,"Meninges") - CID 7153
|
|-
|123
|dura mater
|style="background:rgb(255,244,209)"|rgb(255,244,209)
|
|
|
|
|
|
|
|
|-
|124
|arachnoid
|style="background:rgb(255,244,209)"|rgb(255,244,209)
|
|
|
|
|
|
|
|
|-
|125
|pia mater
|style="background:rgb(255,244,209)"|rgb(255,244,209)
|
|
|
|
|
|
|
|
|-
|126
|muscles of head
|style="background:rgb(201,121,77)"|rgb(201,121,77)
|
|
|
|
|
|
|
|
|-
|127
|salivary glands
|style="background:rgb(70,163,117)"|rgb(70,163,117)
|
|
|
|
|
|
|
|
|-
|128
|lips
|style="background:rgb(188,91,95)"|rgb(188,91,95)
|
|
|
|
|
|
|
|
|-
|129
|nose
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|130
|tongue
|style="background:rgb(166,84,94)"|rgb(166,84,94)
|
|
|
|
|
|
|
|
|-
|131
|soft palate
|style="background:rgb(182,105,107)"|rgb(182,105,107)
|
|
|
|
|
|
|
|
|-
|132
|right inner ear
|style="background:rgb(229,147,118)"|rgb(229,147,118)
|
|
|
|
|
|
|
|
|-
|133
|left inner ear
|style="background:rgb(229,147,118)"|rgb(229,147,118)
|
|
|
|
|
|
|
|
|-
|134
|right external ear
|style="background:rgb(174,122,90)"|rgb(174,122,90)
|
|
|
|
|
|
|
|
|-
|135
|left external ear
|style="background:rgb(174,122,90)"|rgb(174,122,90)
|
|
|
|
|
|
|
|
|-
|136
|right middle ear
|style="background:rgb(201,112,73)"|rgb(201,112,73)
|
|
|
|
|
|
|
|
|-
|137
|left middle ear
|style="background:rgb(201,112,73)"|rgb(201,112,73)
|
|
|
|
|
|
|
|
|-
|138
|right eyeball
|style="background:rgb(194,142,0)"|rgb(194,142,0)
|
|
|
|
|
|
|
|
|-
|139
|left eyeball
|style="background:rgb(194,142,0)"|rgb(194,142,0)
|
|
|
|
|
|
|
|
|-
|140
|skull
|style="background:rgb(241,213,144)"|rgb(241,213,144)
|
|
|
|
|
|
| (T-11100,SRT,"Skull") - CID 7153
|
|-
|141
|right frontal bone
|style="background:rgb(203,179,77)"|rgb(203,179,77)
|
|
|
|
|
|
|
|
|-
|142
|left frontal bone
|style="background:rgb(203,179,77)"|rgb(203,179,77)
|
|
|
|
|
|
|
|
|-
|143
|right parietal bone
|style="background:rgb(229,204,109)"|rgb(229,204,109)
|
|
|
|
|
|
|
|
|-
|144
|left parietal bone
|style="background:rgb(229,204,109)"|rgb(229,204,109)
|
|
|
|
|
|
|
|
|-
|145
|right temporal bone
|style="background:rgb(255,243,152)"|rgb(255,243,152)
|
|
|
|
|
|
|
|
|-
|146
|left temporal bone
|style="background:rgb(255,243,152)"|rgb(255,243,152)
|
|
|
|
|
|
|
|
|-
|147
|right sphenoid bone
|style="background:rgb(209,185,85)"|rgb(209,185,85)
|
|
|
|
|
|
|
|
|-
|148
|left sphenoid bone
|style="background:rgb(209,185,85)"|rgb(209,185,85)
|
|
|
|
|
|
|
|
|-
|149
|right ethmoid bone
|style="background:rgb(248,223,131)"|rgb(248,223,131)
|
|
|
|
|
|
|
|
|-
|150
|left ethmoid bone
|style="background:rgb(248,223,131)"|rgb(248,223,131)
|
|
|
|
|
|
|
|
|-
|151
|occipital bone
|style="background:rgb(255,230,138)"|rgb(255,230,138)
|
|
|
|
|
|
|
|
|-
|152
|maxilla
|style="background:rgb(196,172,68)"|rgb(196,172,68)
|
|
|
|
|
|
|
|
|-
|153
|right zygomatic bone
|style="background:rgb(255,255,167)"|rgb(255,255,167)
| DC: ? use more general (T-111BE,SRT,"Zygoma"); also, where is the left one ??
| (T-11167,SRT,"Zygomatic arch") - CID 4028
| (G-A100,SRT,"Right")
|
|
|
|
|
|-
|154
|right lacrimal bone
|style="background:rgb(255,250,160)"|rgb(255,250,160)
|
|
|
|
|
|
|
|
|-
|155
|vomer bone
|style="background:rgb(255,237,145)"|rgb(255,237,145)
|
|
|
|
|
|
|
|
|-
|156
|right palatine bone
|style="background:rgb(242,217,123)"|rgb(242,217,123)
|
| (T-111A8,SRT,"Palatine Bone")
| (G-A100,SRT,"Right")
|
|
|
|
|
|-
|157
|left palatine bone
|style="background:rgb(242,217,123)"|rgb(242,217,123)
|
| (T-111A8,SRT,"Palatine Bone")
| (G-A101,SRT,"Left")
|
|
|
|
|
|-
|158
|mandible
|style="background:rgb(222,198,101)"|rgb(222,198,101)
|
|
|
|
|
|
|
|
|-
|159
|neck
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|160
|muscles of neck
|style="background:rgb(213,124,109)"|rgb(213,124,109)
|
|
|
|
|
|
|
|
|-
|161
|pharynx
|style="background:rgb(184,105,108)"|rgb(184,105,108)
|
|
|
|
|
|
|
|
|-
|162
|larynx
|style="background:rgb(150,208,243)"|rgb(150,208,243)
|
|
|
|
|
|
|
|
|-
|163
|thyroid gland
|style="background:rgb(62,162,114)"|rgb(62,162,114)
|
|
|
|
|
|
|
|
|-
|164
|right parathyroid glands
|style="background:rgb(62,162,114)"|rgb(62,162,114)
|
|
|
|
|
|
|
|
|-
|165
|left parathyroid glands
|style="background:rgb(62,162,114)"|rgb(62,162,114)
|
|
|
|
|
|
|
|
|-
|166
|skeleton of neck
|style="background:rgb(242,206,142)"|rgb(242,206,142)
|
|
|
|
|
|
|
|
|-
|167
|hyoid bone
|style="background:rgb(250,210,139)"|rgb(250,210,139)
|
|
|
|
|
|
|
|
|-
|168
|cervical vertebral column
|style="background:rgb(255,255,207)"|rgb(255,255,207)
|
|
|
|
|
|
|
|
|-
|169
|thorax
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|170
|trachea
|style="background:rgb(182,228,255)"|rgb(182,228,255)
|
|
|
|
|
|
|
|
|-
|171
|bronchi
|style="background:rgb(175,216,244)"|rgb(175,216,244)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-26000,SRT,"Bronchi") - CID 7155
|
|-
|172
|right lung
|style="background:rgb(197,165,145)"|rgb(197,165,145)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-28000,SRT,"Lung") - CID 7155
| (G-A100,SRT,"Right")
|-
|173
|left lung
|style="background:rgb(197,165,145)"|rgb(197,165,145)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-28000,SRT,"Lung") - CID 7155
| (G-A101,SRT,"Left")
|-
|174
|superior lobe of right lung
|style="background:rgb(172,138,115)"|rgb(172,138,115)
|
|
|
|
|
|
|
|
|-
|175
|superior lobe of left lung
|style="background:rgb(172,138,115)"|rgb(172,138,115)
|
|
|
|
|
|
|
|
|-
|176
|middle lobe of right lung
|style="background:rgb(202,164,140)"|rgb(202,164,140)
|
|
|
|
|
|
|
|
|-
|177
|inferior lobe of right lung
|style="background:rgb(224,186,162)"|rgb(224,186,162)
|
|
|
|
|
|
|
|
|-
|178
|inferior lobe of left lung
|style="background:rgb(224,186,162)"|rgb(224,186,162)
|
|
|
|
|
|
|
|
|-
|179
|pleura
|style="background:rgb(255,245,217)"|rgb(255,245,217)
|
|
|
|
|
|
|
|
|-
|180
|heart
|style="background:rgb(206,110,84)"|rgb(206,110,84)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-32000,SRT,"Heart") - CID 7152
|
|-
|181
|right atrium
|style="background:rgb(210,115,89)"|rgb(210,115,89)
|
|
|
|
|
|
|
|
|-
|182
|left atrium
|style="background:rgb(203,108,81)"|rgb(203,108,81)
|
|
|
|
|
|
|
|
|-
|183
|atrial septum
|style="background:rgb(233,138,112)"|rgb(233,138,112)
|
|
|
|
|
|
|
|
|-
|184
|ventricular septum
|style="background:rgb(195,100,73)"|rgb(195,100,73)
|
|
|
|
|
|
|
|
|-
|185
|right ventricle of heart
|style="background:rgb(181,85,57)"|rgb(181,85,57)
| DC: SRT code is precordinated; no need for laterality modifier
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-32500,SRT,"Right Ventricle") - CID 7152
|
|-
|186
|left ventricle of heart
|style="background:rgb(152,55,13)"|rgb(152,55,13)
| DC: SRT code is precordinated; no need for laterality modifier
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-32600,SRT,"Left Ventricle") - CID 7152
|
|-
|187
|mitral valve
|style="background:rgb(159,63,27)"|rgb(159,63,27)
|
|
|
|
|
|
|
|
|-
|188
|tricuspid valve
|style="background:rgb(166,70,38)"|rgb(166,70,38)
|
|
|
|
|
|
|
|
|-
|189
|aortic valve
|style="background:rgb(218,123,97)"|rgb(218,123,97)
|
|
|
|
|
|
|
|
|-
|190
|pulmonary valve
|style="background:rgb(225,130,104)"|rgb(225,130,104)
|
|
|
|
|
|
|
|
|-
|191
|aorta
|style="background:rgb(224,97,76)"|rgb(224,97,76)
| DC: ? need specific parts (ascending, arch, descending thoracic, abdominal)
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-42000,SRT,"Aorta") - CID 7152
|
|-
|192
|pericardium
|style="background:rgb(255,244,209)"|rgb(255,244,209)
|
|
|
|
|
|
|
|
|-
|193
|pericardial cavity
|style="background:rgb(184,122,154)"|rgb(184,122,154)
|
|
|
|
|
|
|
|
|-
|194
|esophagus
|style="background:rgb(211,171,143)"|rgb(211,171,143)
|
|
|
|
|
|
|
|
|-
|195
|thymus
|style="background:rgb(47,150,103)"|rgb(47,150,103)
|
|
|
|
|
|
|
|
|-
|196
|mediastinum
|style="background:rgb(255,244,209)"|rgb(255,244,209)
|
|
|
|
|
|
|
|
|-
|197
|skin of thoracic wall
|style="background:rgb(173,121,88)"|rgb(173,121,88)
|
|
|
|
|
|
|
|
|-
|198
|muscles of thoracic wall
|style="background:rgb(188,95,76)"|rgb(188,95,76)
|
|
|
|
|
|
|
|
|-
|199
|skeleton of thorax
|style="background:rgb(255,239,172)"|rgb(255,239,172)
|
|
|
|
|
|
|
|
|-
|200
|thoracic vertebral column
|style="background:rgb(226,202,134)"|rgb(226,202,134)
|
|
|
|
|
|
|
|
|-
|201
|ribs
|style="background:rgb(253,232,158)"|rgb(253,232,158)
|
|
|
|
|
|
|
|
|-
|202
|sternum
|style="background:rgb(244,217,154)"|rgb(244,217,154)
|
|
|
|
|
|
|
|
|-
|203
|right clavicle
|style="background:rgb(205,179,108)"|rgb(205,179,108)
|
|
|
|
|
|
|
|
|-
|204
|left clavicle
|style="background:rgb(205,179,108)"|rgb(205,179,108)
|
|
|
|
|
|
|
|
|-
|205
|abdominal cavity
|style="background:rgb(186,124,161)"|rgb(186,124,161)
|
|
|
|
|
|
|
|
|-
|206
|abdomen
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|207
|peritoneum
|style="background:rgb(255,255,220)"|rgb(255,255,220)
|
|
|
|
|
|
|
|
|-
|208
|omentum
|style="background:rgb(234,234,194)"|rgb(234,234,194)
|
|
|
|
|
|
|
|
|-
|209
|peritoneal cavity
|style="background:rgb(204,142,178)"|rgb(204,142,178)
|
|
|
|
|
|
|
|
|-
|210
|retroperitoneal space
|style="background:rgb(180,119,153)"|rgb(180,119,153)
|
|
|
|
|
|
|
|
|-
|211
|stomach
|style="background:rgb(216,132,105)"|rgb(216,132,105)
|
|
|
|
|
|
|
|
|-
|212
|duodenum
|style="background:rgb(255,253,229)"|rgb(255,253,229)
|
|
|
|
|
|
|
|
|-
|213
|small bowel
|style="background:rgb(205,167,142)"|rgb(205,167,142)
|
|
|
|
|
|
|
|
|-
|214
|colon
|style="background:rgb(204,168,143)"|rgb(204,168,143)
|
|
|
|
|
|
|
|
|-
|215
|anus
|style="background:rgb(255,224,199)"|rgb(255,224,199)
|
|
|
|
|
|
|
|
|-
|216
|liver
|style="background:rgb(221,130,101)"|rgb(221,130,101)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-62000,SRT,"Liver") - CID 7154
|
|-
|217
|biliary tree
|style="background:rgb(0,145,30)"|rgb(0,145,30)
|
|
|
|
|
|
|
|
|-
|218
|gallbladder
|style="background:rgb(139,150,98)"|rgb(139,150,98)
|
|
|
|
|
|
|
|
|-
|219
|pancreas
|style="background:rgb(249,180,111)"|rgb(249,180,111)
|
|
|
|
|
|
|
|
|-
|220
|spleen
|style="background:rgb(157,108,162)"|rgb(157,108,162)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-C3000,SRT,"Spleen) - CID 7154
|
|-
|221
|urinary system
|style="background:rgb(203,136,116)"|rgb(203,136,116)
|
|
|
|
|
|
|
|
|-
|222
|right kidney
|style="background:rgb(185,102,83)"|rgb(185,102,83)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-71000,SRT,"Kidney") - CID 7154
| (G-A100,SRT,"Right")
|-
|223
|left kidney
|style="background:rgb(185,102,83)"|rgb(185,102,83)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-71000,SRT,"Kidney") - CID 7154
| (G-A101,SRT,"Left")
|-
|224
|right ureter
|style="background:rgb(247,182,164)"|rgb(247,182,164)
|
|
|
|
|
|
|
|
|-
|225
|left ureter
|style="background:rgb(247,182,164)"|rgb(247,182,164)
|
|
|
|
|
|
|
|
|-
|226
|urinary bladder
|style="background:rgb(222,154,132)"|rgb(222,154,132)
|
|
|
|
|
|
|
|
|-
|227
|urethra
|style="background:rgb(124,186,223)"|rgb(124,186,223)
|
|
|
|
|
|
|
|
|-
|228
|right adrenal gland
|style="background:rgb(249,186,150)"|rgb(249,186,150)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-B3000,SRT,"Adrenal Gland")
| (G-A100,SRT,"Right")
|-
|229
|left adrenal gland
|style="background:rgb(249,186,150)"|rgb(249,186,150)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-B3000,SRT,"Adrenal Gland")
| (G-A101,SRT,"Left")
|-
|230
|female internal genitalia
|style="background:rgb(244,170,147)"|rgb(244,170,147)
|
|
|
|
|
|
|
|
|-
|231
|uterus
|style="background:rgb(255,181,158)"|rgb(255,181,158)
|
|
|
|
|
|
|
|
|-
|232
|right fallopian tube
|style="background:rgb(255,190,165)"|rgb(255,190,165)
|
|
|
|
|
|
|
|
|-
|233
|left fallopian tube
|style="background:rgb(227,153,130)"|rgb(227,153,130)
|
|
|
|
|
|
|
|
|-
|234
|right ovary
|style="background:rgb(213,141,113)"|rgb(213,141,113)
|
|
|
|
|
|
|
|
|-
|235
|left ovary
|style="background:rgb(213,141,113)"|rgb(213,141,113)
|
|
|
|
|
|
|
|
|-
|236
|vagina
|style="background:rgb(193,123,103)"|rgb(193,123,103)
|
|
|
|
|
|
|
|
|-
|237
|male internal genitalia
|style="background:rgb(216,146,127)"|rgb(216,146,127)
|
|
|
|
|
|
|
|
|-
|238
|prostate
|style="background:rgb(230,158,140)"|rgb(230,158,140)
|
|
|
|
|
|
|
|
|-
|239
|right seminal vesicle
|style="background:rgb(245,172,147)"|rgb(245,172,147)
|
|
|
|
|
|
|
|
|-
|240
|left seminal vesicle
|style="background:rgb(245,172,147)"|rgb(245,172,147)
|
|
|
|
|
|
|
|
|-
|241
|right deferent duct
|style="background:rgb(241,172,151)"|rgb(241,172,151)
|
|
|
|
|
|
|
|
|-
|242
|left deferent duct
|style="background:rgb(241,172,151)"|rgb(241,172,151)
|
|
|
|
|
|
|
|
|-
|243
|skin of abdominal wall
|style="background:rgb(177,124,92)"|rgb(177,124,92)
|
|
|
|
|
|
|
|
|-
|244
|muscles of abdominal wall
|style="background:rgb(171,85,68)"|rgb(171,85,68)
|
|
|
|
|
|
|
|
|-
|245
|skeleton of abdomen
|style="background:rgb(217,198,131)"|rgb(217,198,131)
|
|
|
|
|
|
|
|
|-
|246
|lumbar vertebral column
|style="background:rgb(212,188,102)"|rgb(212,188,102)
|
|
|
|
|
|
|
|
|-
|247
|female external genitalia
|style="background:rgb(185,135,134)"|rgb(185,135,134)
|
|
|
|
|
|
|
|
|-
|248
|male external genitalia
|style="background:rgb(185,135,134)"|rgb(185,135,134)
|
|
|
|
|
|
|
|
|-
|249
|skeleton of upper limb
|style="background:rgb(198,175,125)"|rgb(198,175,125)
|
|
|
|
|
|
|
|
|-
|250
|muscles of upper limb
|style="background:rgb(194,98,79)"|rgb(194,98,79)
|
|
|
|
|
|
|
|
|-
|251
|right upper limb
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|252
|left upper limb
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|253
|right shoulder
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|254
|left shoulder
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|255
|right arm
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|256
|left arm
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|257
|right elbow
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|258
|left elbow
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|259
|right forearm
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|260
|left forearm
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|261
|right wrist
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|262
|left wrist
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|263
|right hand
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|264
|left hand
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|265
|skeleton of lower limb
|style="background:rgb(255,238,170)"|rgb(255,238,170)
|
|
|
|
|
|
|
|
|-
|266
|muscles of lower limb
|style="background:rgb(206,111,93)"|rgb(206,111,93)
|
|
|
|
|
|
|
|
|-
|267
|right lower limb
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|268
|left lower limb
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|269
|right hip
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|270
|left hip
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|271
|right thigh
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|272
|left thigh
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|273
|right knee
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|274
|left knee
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|275
|right leg
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|276
|left leg
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|277
|right foot
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|278
|left foot
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|279
|peripheral nervous system
|style="background:rgb(216,186,0)"|rgb(216,186,0)
|
|
|
|
|
|
|
|
|-
|280
|autonomic nerve
|style="background:rgb(255,226,77)"|rgb(255,226,77)
|
|
|
|
|
|
|
|
|-
|281
|sympathetic trunk
|style="background:rgb(255,243,106)"|rgb(255,243,106)
|
|
|
|
|
|
|
|
|-
|282
|cranial nerves
|style="background:rgb(255,234,92)"|rgb(255,234,92)
|
|
|
|
|
|
|
|
|-
|283
|vagus nerve
|style="background:rgb(240,210,35)"|rgb(240,210,35)
|
|
|
|
|
|
|
|
|-
|284
|peripheral nerve
|style="background:rgb(224,194,0)"|rgb(224,194,0)
|
|
|
|
|
|
|
|
|-
|285
|circulatory system
|style="background:rgb(213,99,79)"|rgb(213,99,79)
|
|
|
|
|
|
|
|
|-
|286
|systemic arterial system
|style="background:rgb(217,102,81)"|rgb(217,102,81)
|
|
|
|
|
|
|
|
|-
|287
|systemic venous system
|style="background:rgb(0,147,202)"|rgb(0,147,202)
|
|
|
|
|
|
|
|
|-
|288
|pulmonary arterial system
|style="background:rgb(0,122,171)"|rgb(0,122,171)
|
|
|
|
|
|
|
|
|-
|289
|pulmonary venous system
|style="background:rgb(186,77,64)"|rgb(186,77,64)
|
|
|
|
|
|
|
|
|-
|290
|lymphatic system
|style="background:rgb(111,197,131)"|rgb(111,197,131)
|
|
|
|
|
|
|
|
|-
|291
|needle
|style="background:rgb(240,255,30)"|rgb(240,255,30)
|
|
|
|
|
| (A-00004,SRT,"Physical Object")
| (A-30360,SRT,"Needle") - CID 7157++
|
|-
|292
|region 0
|style="background:rgb(185,232,61)"|rgb(185,232,61)
|
|
|
|
|
|
|
|
|-
|293
|region 1
|style="background:rgb(0,226,255)"|rgb(0,226,255)
|
|
|
|
|
|
|
|
|-
|294
|region 2
|style="background:rgb(251,159,255)"|rgb(251,159,255)
|
|
|
|
|
|
|
|
|-
|295
|region 3
|style="background:rgb(230,169,29)"|rgb(230,169,29)
|
|
|
|
|
|
|
|
|-
|296
|region 4
|style="background:rgb(0,194,113)"|rgb(0,194,113)
|
|
|
|
|
|
|
|
|-
|297
|region 5
|style="background:rgb(104,160,249)"|rgb(104,160,249)
|
|
|
|
|
|
|
|
|-
|298
|region 6
|style="background:rgb(221,108,158)"|rgb(221,108,158)
|
|
|
|
|
|
|
|
|-
|299
|region 7
|style="background:rgb(137,142,0)"|rgb(137,142,0)
|
|
|
|
|
|
|
|
|-
|300
|region 8
|style="background:rgb(230,70,0)"|rgb(230,70,0)
|
|
|
|
|
|
|
|
|-
|301
|region 9
|style="background:rgb(0,147,0)"|rgb(0,147,0)
|
|
|
|
|
|
|
|
|-
|302
|region 10
|style="background:rgb(0,147,248)"|rgb(0,147,248)
|
|
|
|
|
|
|
|
|-
|303
|region 11
|style="background:rgb(231,0,206)"|rgb(231,0,206)
|
|
|
|
|
|
|
|
|-
|304
|region 12
|style="background:rgb(129,78,0)"|rgb(129,78,0)
|
|
|
|
|
|
|
|
|-
|305
|region 13
|style="background:rgb(0,116,0)"|rgb(0,116,0)
|
|
|
|
|
|
|
|
|-
|306
|region 14
|style="background:rgb(0,0,255)"|rgb(0,0,255)
|
|
|
|
|
|
|
|
|-
|307
|region 15
|style="background:rgb(157,0,0)"|rgb(157,0,0)
|
|
|
|
|
|
|
|
|-
|308
|unknown
|style="background:rgb(100,100,130)"|rgb(100,100,130)
|
|
|
|
|
|
|
|
|-
|309
|cyst
|style="background:rgb(205,205,100)"|rgb(205,205,100)
|
|
|
|
|
|
|
|
|-
|}

==New labels added==

{| class="wikitable sortable labelpage labelpagetable" border="1"
! integer_label
! text_label
! color
! notes
! anatomic region
! anatomic region modifier
! primary anatomic structure
! primary anatomic structure modifier
! segmented property category - CID 7150
! segmented property type
! segmented property type modifier
|-
| ??
|rectum
|style="background:rgb(0,0,0);color:white"|rgba(?,?,?,?)
|
|
|
|
|
| (M-01000,SRT,"Morphologically Altered Structure")
| (M-3340A,SRT,"Cyst") - CID 7159
|
|-
| ??
| left testis
|style="background:rgb(0,0,0);color:white"|rgba(?,?,?,?)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-94000,SRT,"Testis") - CID 7160
|
|-
| ??
| right testis
|style="background:rgb(0,0,0);color:white"|rgba(?,?,?,?)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-94000,SRT,"Testis") - CID 7160
|
|-
| ??
| cervix
|style="background:rgb(0,0,0);color:white"|rgba(?,?,?,?)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-83200,SRT,"Cervix") - CID 7160
|
|-
| ??
| diaphragm
|style="background:rgb(0,0,0);color:white"|rgba(?,?,?,?)
| DC: ? need left/right - probably not
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-D3400,SRT,"Diaphragm) - CID 7155
|
|-
| ??
| table
|style="background:rgb(0,0,0);color:white"|rgba(?,?,?,?)
| DC: cf. 9 - table detection is handled specifically by some systems
|
|
|
|
| (A-00004,SRT,"Physical Object")
| (A-17350,SRT,"Table") - CID 7158
|
|-
| ??
| clothing
|style="background:rgb(0,0,0);color:white"|rgba(?,?,?,?)
| cf. 9
|
|
|
|
| (A-00004,SRT,"Physical Object")
| (A-00916,SRT,"Clothing") - CID 7158
|
|-
|}

Segmentation objects allow to encode recommended display color in "Recommended Display CIELab Value" (0062,000D) attribute; these values are encoded in [http://en.wikipedia.org/wiki/Lab_color_space CIALab].

Projects:QIN:3D Slicer Annotation Image Markup:Standard Terminology

2012-09-18T13:03:48Z

Dclunie: /* Original labels categorized */

This is a collection of relevant pieces from:
* http://medical.nema.org/Dicom/2011/11_03pu.pdf
* http://medical.nema.org/Dicom/2011/11_16pu.pdf

=Segmentation image module attributes=

Segmentation image module attributes must in particular include the following (PS 3.3-2011, p.989):

[[Image:PS3.3-SegmentationAttributes.png]]

[[Image:PS3.3-CodedEntryData.png]]

==Code sequence attributes==

[[Image:PS3.3-CodeSequenceAttributes.png]]

==General Anatomy Macro==

The General Anatomy Macro is defined as follows (PS 3.3-2011, p.96):

[[Image:PS3.3-GeneralAnatomyMacro.png]]

==Coding Scheme Designators==

[[Image:PS3.3-CodingSchemeDesignators1.png]]

[[Image:PS3.3-CodingSchemeDesignators2.png]]

NOTE: this table is incomplete, consult PS 3.16-2011 p.43.

=RadLex=
* General information: http://rsna.org/RadLex.aspx
* License: http://rsna.org/uploadedFiles/RSNA/Content/Informatics/radlex_public_license_version_1-0-1.pdf
* Example hierarchy of the term mapping from RadLex browser (liver: http://www.radlex.org/RID/RID13419):

[[Image:RadLex_RID13419.png]]

=SNOMED=

David Clunie in email communication Sept 17, 2012:
<pre>
[...] The [DICOM] agreement with SNOMED
is to allow any implementer to use the terms included in DICOM in their
implementations and products without fee; it is not just to be able to
include them in the text of the standard documents.

So, since Slicer would be using the concepts to include in a DICOM SEG
object, you do not need any additional agreement, nor any agreement with
SNOMED to distribute the source code (my PixelMed Java DICOM toolkit is
full of SNOMED codes, for example, and I neither have not need such an
additional agreement).
</pre>

=Mapping Slicer GeneralAnatomy LUT to Standard Terminology (work in progress)=
Original GeneralAnatomy LUT see here: http://www.slicer.org/slicerWiki/index.php/Slicer3:2010_GenericAnatomyColors

==Original labels categorized==

{| class="wikitable sortable labelpage labelpagetable" border="1"
! integer_label
! text_label
! color
! notes
! anatomic region
! anatomic region modifier
! primary anatomic structure
! primary anatomic structure modifier
! segmented property category - CID 7150
! segmented property type
! segmented property type modifier
|-
|0
|background
|style="background:rgb(0,0,0);color:white"|rgba(0,0,0,0)
|
|
|
|
|
|
|
|
|-
|1
|tissue
|style="background:rgb(128,174,128)"|rgb(128,174,128)
| Default label for bodily tissues
|
|
|
|
| (T-D0050,SRT,"Tissue")
|
|
|-
|2
|bone
|style="background:rgb(241,214,145)"|rgb(241,214,145)
|
|
|
|
|
| (T-D0050,SRT,"Tissue")
| (T-D016E,SRT,"Bone")
|
|-
|3
|skin
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|4
|connective tissue
|style="background:rgb(111,184,210)"|rgb(111,184,210)
|
|
|
|
|
|
|
|
|-
|5
|blood
|style="background:rgb(216,101,79)"|rgb(216,101,79)
|
|
|
|
|
|
|
|
|-
|6
|organ
|style="background:rgb(221,130,101)"|rgb(221,130,101)
|
|
|
|
|
|
|
|
|-
|7
|mass
|style="background:rgb(144,238,144)"|rgb(144,238,144)
| Could be tumor or other lesion
|
|
|
|
| (M-01000,SRT,"Morphologically Altered Structure")
| (M-03000,SRT,"Mass") - CID 7159++
|
|-
|8
|muscle
|style="background:rgb(192,104,88)"|rgb(192,104,88)
|
|
|
|
|
| (T-D0050,SRT,"Tissue")
| (T-13001,SRT,"Muscle") - CID 7160 (should refactor)
|
|-
|9
|foreign object
|style="background:rgb(220,245,20)"|rgb(220,245,20)
| Implants, surical instruments, table...
|
|
|
|
| (A-00004,SRT,"Physical Object")
| (M-30400,SRT,"Foreign Body")
|
|-
|10
|waste
|style="background:rgb(78,63,0)"|rgb(78,63,0)
|
|
|
|
|
|
|
|
|-
|11
|teeth
|style="background:rgb(255,250,220)"|rgb(255,250,220)
|
|
|
|
|
|
|
|
|-
|12
|fat
|style="background:rgb(230,220,70)"|rgb(230,220,70)
|
|
|
|
|
|
|
|
|-
|13
|gray matter
|style="background:rgb(200,200,235)"|rgb(200,200,235)
| cf. 39 and 116
|
|
|
|
| (T-D0050,SRT,"Tissue")
| (T-A0096,SRT,"Gray Matter") - CID 7153 Edited
|
|-
|14
|white matter
|style="background:rgb(250,250,210)"|rgb(250,250,210)
|
|
|
|
|
| (T-D0050,SRT,"Tissue")
| (T-A0095,SRT,"White Matter") - CID 7153 Edited
|
|-
|15
|nerve
|style="background:rgb(244,214,49)"|rgb(244,214,49)
|
|
|
|
|
|
|
|
|-
|16
|vein
|style="background:rgb(0,151,206)"|rgb(0,151,206)
|
|
|
|
|
|
|
|
|-
|17
|artery
|style="background:rgb(216,101,79)"|rgb(216,101,79)
|
|
|
|
|
|
|
|
|-
|18
|capillary
|style="background:rgb(183,156,220)"|rgb(183,156,220)
|
|
|
|
|
|
|
|
|-
|19
|ligament
|style="background:rgb(183,214,211)"|rgb(183,214,211)
|
|
|
|
|
|
|
|
|-
|20
|tendon
|style="background:rgb(152,189,207)"|rgb(152,189,207)
|
|
|
|
|
|
|
|
|-
|21
|cartilage
|style="background:rgb(111,184,210)"|rgb(111,184,210)
|
|
|
|
|
|
|
|
|-
|22
|meniscus
|style="background:rgb(178,212,242)"|rgb(178,212,242)
|
|
|
|
|
|
|
|
|-
|23
|lymph node
|style="background:rgb(68,172,100)"|rgb(68,172,100)
|
|
|
|
|
|
|
|
|-
|24
|lymphatic vessel
|style="background:rgb(111,197,131)"|rgb(111,197,131)
|
|
|
|
|
|
|
|
|-
|25
|cerebro-spinal fluid
|style="background:rgb(85,188,255)"|rgb(85,188,255)
| cf. 106
|
|
|
|
| (T-D0050,SRT,"Tissue")
| (T-A1000,SRT,"Cerebrospinal Fluid") - CID 7153
|
|-
|26
|bile
|style="background:rgb(0,145,30)"|rgb(0,145,30)
|
|
|
|
|
|
|
|
|-
|27
|urine
|style="background:rgb(214,230,130)"|rgb(214,230,130)
|
|
|
|
|
|
|
|
|-
|28
|feces
|style="background:rgb(78,63,0)"|rgb(78,63,0)
|
|
|
|
|
|
|
|
|-
|29
|gas
|style="background:rgb(218,255,255)"|rgb(218,255,255)
|
|
|
|
|
|
|
|
|-
|30
|fluid
|style="background:rgb(170,250,250)"|rgb(170,250,250)
|
|
|
|
|
|
|
|
|-
|31
|edema
|style="background:rgb(140,224,228)"|rgb(140,224,228)
|
|
|
|
|
| (M-01000,SRT,"Morphologically Altered Structure")
| (M-36300,SRT,"Edema") - CID 7159++
|
|-
|32
|bleeding
|style="background:rgb(188,65,28)"|rgb(188,65,28)
|
|
|
|
|
| (M-01000,SRT,"Morphologically Altered Structure")
| (M-37000,SRT,"Hemorrhage") - CID 7159++
|
|-
|33
|necrosis
|style="background:rgb(216,191,216)"|rgb(216,191,216)
|
|
|
|
|
| (M-01000,SRT,"Morphologically Altered Structure")
| (M-54000,SRT,"Necrosis") - CID 7159
|
|-
|34
|clot
|style="background:rgb(145,60,66)"|rgb(145,60,66)
|
|
|
|
|
| (M-01000,SRT,"Morphologically Altered Structure")
| (M-35000,SRT,"Blood Clot") - CID 7159++
|
|-
|35
|embolism
|style="background:rgb(150,98,83)"|rgb(150,98,83)
|
|
|
|
|
| (M-01000,SRT,"Morphologically Altered Structure")
| (M-35300,SRT,"Embolus") - CID 7159++
|
|-
|36
|head
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|37
|central nervous system
|style="background:rgb(244,214,49)"|rgb(244,214,49)
|
|
|
|
|
|
|
|
|-
|38
|brain
|style="background:rgb(250,250,225)"|rgb(250,250,225)
|
|
|
|
|
| ? tissue or structure
| (T-A0100,SRT,"Brain") - CID 7153++
|
|-
|39
|gray matter of brain
|style="background:rgb(200,200,215)"|rgb(200,200,215)
| cf. 13 and 116
|
|
|
|
| (T-D0050,SRT,"Tissue")
| (T-A2020,SRT,"Cerebral Gray Matter") - CID 7153 Edited
|
|-
|40
|telencephalon
|style="background:rgb(68,131,98)"|rgb(68,131,98)
|
|
|
|
|
|
|
|
|-
|41
|cerebral cortex
|style="background:rgb(128,174,128)"|rgb(128,174,128)
|
|
|
|
|
|
|
|
|-
|42
|right frontal lobe
|style="background:rgb(83,146,164)"|rgb(83,146,164)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A2218,SRT,"Frontal Lobe") - CID 7153++
| (G-A100,SRT,"Right")
|-
|43
|left frontal lobe
|style="background:rgb(83,146,164)"|rgb(83,146,164)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A2218,SRT,"Frontal Lobe") - CID 7153++
| (G-A101,SRT,"Left")
|-
|44
|right temporal lobe
|style="background:rgb(162,115,105)"|rgb(162,115,105)
|
|
|
|
|
|
|
|
|-
|45
|left temporal lobe
|style="background:rgb(162,115,105)"|rgb(162,115,105)
|
|
|
|
|
|
|
|
|-
|46
|right parietal lobe
|style="background:rgb(141,93,137)"|rgb(141,93,137)
|
|
|
|
|
|
|
|
|-
|47
|left parietal lobe
|style="background:rgb(141,93,137)"|rgb(141,93,137)
|
|
|
|
|
|
|
|
|-
|48
|right occipital lobe
|style="background:rgb(182,166,110)"|rgb(182,166,110)
|
|
|
|
|
|
|
|
|-
|49
|left occipital lobe
|style="background:rgb(182,166,110)"|rgb(182,166,110)
|
|
|
|
|
|
|
|
|-
|50
|right insular lobe
|style="background:rgb(188,135,166)"|rgb(188,135,166)
|
|
|
|
|
|
|
|
|-
|51
|left insular lobe
|style="background:rgb(188,135,166)"|rgb(188,135,166)
|
|
|
|
|
|
|
|
|-
|52
|right limbic lobe
|style="background:rgb(154,150,201)"|rgb(154,150,201)
|
|
|
|
|
|
|
|
|-
|53
|left limbic lobe
|style="background:rgb(154,150,201)"|rgb(154,150,201)
|
|
|
|
|
|
|
|
|-
|54
|right striatum
|style="background:rgb(177,140,190)"|rgb(177,140,190)
|
|
|
|
|
|
|
|
|-
|55
|left striatum
|style="background:rgb(177,140,190)"|rgb(177,140,190)
|
|
|
|
|
|
|
|
|-
|56
|right caudate nucleus
|style="background:rgb(30,111,85)"|rgb(30,111,85)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A3201,SRT,"Caudate Nucleus") - CID 7153++
| (G-A100,SRT,"Right")
|-
|57
|left caudate nucleus
|style="background:rgb(30,111,85)"|rgb(30,111,85)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A3201,SRT,"Caudate Nucleus") - CID 7153++
| (G-A101,SRT,"Left")
|-
|58
|right putamen
|style="background:rgb(210,157,166)"|rgb(210,157,166)
|
|
|
|
|
|
|
|
|-
|59
|left putamen
|style="background:rgb(210,157,166)"|rgb(210,157,166)
|
|
|
|
|
|
|
|
|-
|60
|right pallidum
|style="background:rgb(48,129,126)"|rgb(48,129,126)
|
|
|
|
|
|
|
|
|-
|61
|left pallidum
|style="background:rgb(48,129,126)"|rgb(48,129,126)
|
|
|
|
|
|
|
|
|-
|62
|right amygdaloid complex
|style="background:rgb(98,153,112)"|rgb(98,153,112)
|
|
|
|
|
|
|
|
|-
|63
|left amygdaloid complex
|style="background:rgb(98,153,112)"|rgb(98,153,112)
|
|
|
|
|
|
|
|
|-
|64
|diencephalon
|style="background:rgb(69,110,53)"|rgb(69,110,53)
|
|
|
|
|
|
|
|
|-
|65
|thalamus
|style="background:rgb(166,113,137)"|rgb(166,113,137)
|
|
|
|
|
|
|
|
|-
|66
|right thalamus
|style="background:rgb(122,101,38)"|rgb(122,101,38)
|
|
|
|
|
|
|
|
|-
|67
|left thalamus
|style="background:rgb(122,101,38)"|rgb(122,101,38)
|
|
|
|
|
|
|
|
|-
|68
|pineal gland
|style="background:rgb(253,135,192)"|rgb(253,135,192)
|
|
|
|
|
|
|
|
|-
|69
|midbrain
|style="background:rgb(145,92,109)"|rgb(145,92,109)
|
|
|
|
|
|
|
|
|-
|70
|substantia nigra
|style="background:rgb(46,101,131)"|rgb(46,101,131)
|
|
|
|
|
|
|
|
|-
|71
|right substantia nigra
|style="background:rgb(0,108,112)"|rgb(0,108,112)
|
|
|
|
|
|
|
|
|-
|72
|left substantia nigra
|style="background:rgb(0,108,112)"|rgb(0,108,112)
|
|
|
|
|
|
|
|
|-
|73
|cerebral white matter
|style="background:rgb(250,250,225)"|rgb(250,250,225)
|
|
|
|
|
|
|
|
|-
|74
|right superior longitudinal fasciculus
|style="background:rgb(127,150,88)"|rgb(127,150,88)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A2820,SRT,"Superior Longitudinal Fasciculus") - CID 7153++
| (G-A100,SRT,"Right")
|-
|75
|left superior longitudinal fasciculus
|style="background:rgb(127,150,88)"|rgb(127,150,88)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A2820,SRT,"Superior Longitudinal Fasciculus") - CID 7153++
| (G-A101,SRT,"Left")
|-
|76
|right inferior longitudinal fasciculus
|style="background:rgb(159,116,163)"|rgb(159,116,163)
|
|
|
|
|
|
|
|
|-
|77
|left inferior longitudinal fasciculus
|style="background:rgb(159,116,163)"|rgb(159,116,163)
|
|
|
|
|
|
|
|
|-
|78
|right arcuate fasciculus
|style="background:rgb(125,102,154)"|rgb(125,102,154)
| DC: SNOMED needs fixing - specifies arcuate as synonym (ratehr than part of) superior longitudinal fasciculus
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (276650,FMA,"Arcuate Fasciculus") - CID 7153++
| (G-A100,SRT,"Right")
|-
|79
|left arcuate fasciculus
|style="background:rgb(125,102,154)"|rgb(125,102,154)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (276650,FMA,"Arcuate Fasciculus") - CID 7153++
| (G-A101,SRT,"Left")
|-
|80
|right uncinate fasciculus
|style="background:rgb(106,174,155)"|rgb(106,174,155)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A2831,SRT,"Uncinate Fasciculus") - CID 7153++
| (G-A100,SRT,"Right")
|-
|81
|left uncinate fasciculus
|style="background:rgb(106,174,155)"|rgb(106,174,155)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-A2831,SRT,"Uncinate Fasciculus") - CID 7153++
| (G-A101,SRT,"Left")
|-
|82
|right cingulum bundle
|style="background:rgb(154,146,83)"|rgb(154,146,83)
|
|
|
|
|
|
|
|
|-
|83
|left cingulum bundle
|style="background:rgb(154,146,83)"|rgb(154,146,83)
|
|
|
|
|
|
|
|
|-
|84
|projection fibers
|style="background:rgb(126,126,55)"|rgb(126,126,55)
|
|
|
|
|
|
|
|
|-
|85
|right corticospinal tract
|style="background:rgb(201,160,133)"|rgb(201,160,133)
|
|
|
|
|
|
|
|
|-
|86
|left corticospinal tract
|style="background:rgb(201,160,133)"|rgb(201,160,133)
|
|
|
|
|
|
|
|
|-
|87
|right optic radiation
|style="background:rgb(78,152,141)"|rgb(78,152,141)
|
|
|
|
|
|
|
|
|-
|88
|left optic radiation
|style="background:rgb(78,152,141)"|rgb(78,152,141)
|
|
|
|
|
|
|
|
|-
|89
|right medial lemniscus
|style="background:rgb(174,140,103)"|rgb(174,140,103)
|
|
|
|
|
|
|
|
|-
|90
|left medial lemniscus
|style="background:rgb(174,140,103)"|rgb(174,140,103)
|
|
|
|
|
|
|
|
|-
|91
|right superior cerebellar peduncle
|style="background:rgb(139,126,177)"|rgb(139,126,177)
|
|
|
|
|
|
|
|
|-
|92
|left superior cerebellar peduncle
|style="background:rgb(139,126,177)"|rgb(139,126,177)
|
|
|
|
|
|
|
|
|-
|93
|right middle cerebellar peduncle
|style="background:rgb(148,120,72)"|rgb(148,120,72)
|
|
|
|
|
|
|
|
|-
|94
|left middle cerebellar peduncle
|style="background:rgb(148,120,72)"|rgb(148,120,72)
|
|
|
|
|
|
|
|
|-
|95
|right inferior cerebellar peduncle
|style="background:rgb(186,135,135)"|rgb(186,135,135)
|
|
|
|
|
|
|
|
|-
|96
|left inferior cerebellar peduncle
|style="background:rgb(186,135,135)"|rgb(186,135,135)
|
|
|
|
|
|
|
|
|-
|97
|optic chiasm
|style="background:rgb(99,106,24)"|rgb(99,106,24)
|
|
|
|
|
|
|
|
|-
|98
|right optic tract
|style="background:rgb(156,171,108)"|rgb(156,171,108)
|
|
|
|
|
|
|
|
|-
|99
|left optic tract
|style="background:rgb(156,171,108)"|rgb(156,171,108)
|
|
|
|
|
|
|
|
|-
|100
|right fornix
|style="background:rgb(64,123,147)"|rgb(64,123,147)
|
|
|
|
|
|
|
|
|-
|101
|left fornix
|style="background:rgb(64,123,147)"|rgb(64,123,147)
|
|
|
|
|
|
|
|
|-
|102
|commissural fibers
|style="background:rgb(138,95,74)"|rgb(138,95,74)
|
|
|
|
|
|
|
|
|-
|103
|corpus callosum
|style="background:rgb(97,113,158)"|rgb(97,113,158)
|
|
|
|
|
|
|
|
|-
|104
|posterior commissure
|style="background:rgb(126,161,197)"|rgb(126,161,197)
|
|
|
|
|
|
|
|
|-
|105
|cerebellar white matter
|style="background:rgb(194,195,164)"|rgb(194,195,164)
|
|
|
|
|
|
| (T-A6080,SRT,"Cerebellar White Matter") - CID 7153++
|
|-
|106
|CSF space
|style="background:rgb(85,188,255)"|rgb(85,188,255)
| DC: cf. 25; is this one supposed to be brain-specific? assume so
|
|
|
|
|
| (T-A0109,SRT,"Brain Cerebrospinal Fluid Pathway") - CID 7153++
|
|-
|107
|ventricles of brain
|style="background:rgb(88,106,215)"|rgb(88,106,215)
|
|
|
|
|
|
|
|
|-
|108
|right lateral ventricle
|style="background:rgb(88,106,215)"|rgb(88,106,215)
|
|
|
|
|
|
|
|
|-
|109
|left lateral ventricle
|style="background:rgb(88,106,215)"|rgb(88,106,215)
|
|
|
|
|
|
|
|
|-
|110
|right third ventricle
|style="background:rgb(88,106,215)"|rgb(88,106,215)
|
|
|
|
|
|
|
|
|-
|111
|left third ventricle
|style="background:rgb(88,106,215)"|rgb(88,106,215)
|
|
|
|
|
|
|
|
|-
|112
|cerebral aqueduct
|style="background:rgb(88,106,215)"|rgb(88,106,215)
|
|
|
|
|
|
|
|
|-
|113
|fourth ventricle
|style="background:rgb(88,106,215)"|rgb(88,106,215)
|
|
|
|
|
|
|
|
|-
|114
|subarachnoid space
|style="background:rgb(88,106,215)"|rgb(88,106,215)
|
|
|
|
|
|
|
|
|-
|115
|spinal cord
|style="background:rgb(244,214,49)"|rgb(244,214,49)
|
|
|
|
|
|
|
|
|-
|116
|gray matter of spinal cord
|style="background:rgb(200,200,215)"|rgb(200,200,215)
| cf. 7 and 39
|
|
|
|
|
| (T-A7020,SRT,"Spinal Cord Gray Matter") - CID 7153++
|
|-
|117
|white matter of spinal cord
|style="background:rgb(250,250,225)"|rgb(250,250,225)
|
|
|
|
|
|
| (T-A7070,SRT,"Spinal Cord White Matter") - CID 7153++
|
|-
|118
|endocrine system of brain
|style="background:rgb(82,174,128)"|rgb(82,174,128)
|
|
|
|
|
|
|
|
|-
|119
|pituitary gland
|style="background:rgb(57,157,110)"|rgb(57,157,110)
|
|
|
|
|
|
|
|
|-
|120
|adenohypophysis
|style="background:rgb(60,143,83)"|rgb(60,143,83)
|
|
|
|
|
|
|
|
|-
|121
|neurohypophysis
|style="background:rgb(92,162,109)"|rgb(92,162,109)
|
|
|
|
|
|
|
|
|-
|122
|meninges
|style="background:rgb(255,244,209)"|rgb(255,244,209)
|
|
|
|
|
|
| (T-A1110,SRT,"Meninges") - CID 7153
|
|-
|123
|dura mater
|style="background:rgb(255,244,209)"|rgb(255,244,209)
|
|
|
|
|
|
|
|
|-
|124
|arachnoid
|style="background:rgb(255,244,209)"|rgb(255,244,209)
|
|
|
|
|
|
|
|
|-
|125
|pia mater
|style="background:rgb(255,244,209)"|rgb(255,244,209)
|
|
|
|
|
|
|
|
|-
|126
|muscles of head
|style="background:rgb(201,121,77)"|rgb(201,121,77)
|
|
|
|
|
|
|
|
|-
|127
|salivary glands
|style="background:rgb(70,163,117)"|rgb(70,163,117)
|
|
|
|
|
|
|
|
|-
|128
|lips
|style="background:rgb(188,91,95)"|rgb(188,91,95)
|
|
|
|
|
|
|
|
|-
|129
|nose
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|130
|tongue
|style="background:rgb(166,84,94)"|rgb(166,84,94)
|
|
|
|
|
|
|
|
|-
|131
|soft palate
|style="background:rgb(182,105,107)"|rgb(182,105,107)
|
|
|
|
|
|
|
|
|-
|132
|right inner ear
|style="background:rgb(229,147,118)"|rgb(229,147,118)
|
|
|
|
|
|
|
|
|-
|133
|left inner ear
|style="background:rgb(229,147,118)"|rgb(229,147,118)
|
|
|
|
|
|
|
|
|-
|134
|right external ear
|style="background:rgb(174,122,90)"|rgb(174,122,90)
|
|
|
|
|
|
|
|
|-
|135
|left external ear
|style="background:rgb(174,122,90)"|rgb(174,122,90)
|
|
|
|
|
|
|
|
|-
|136
|right middle ear
|style="background:rgb(201,112,73)"|rgb(201,112,73)
|
|
|
|
|
|
|
|
|-
|137
|left middle ear
|style="background:rgb(201,112,73)"|rgb(201,112,73)
|
|
|
|
|
|
|
|
|-
|138
|right eyeball
|style="background:rgb(194,142,0)"|rgb(194,142,0)
|
|
|
|
|
|
|
|
|-
|139
|left eyeball
|style="background:rgb(194,142,0)"|rgb(194,142,0)
|
|
|
|
|
|
|
|
|-
|140
|skull
|style="background:rgb(241,213,144)"|rgb(241,213,144)
|
|
|
|
|
|
| (T-11100,SRT,"Skull") - CID 7153
|
|-
|141
|right frontal bone
|style="background:rgb(203,179,77)"|rgb(203,179,77)
|
|
|
|
|
|
|
|
|-
|142
|left frontal bone
|style="background:rgb(203,179,77)"|rgb(203,179,77)
|
|
|
|
|
|
|
|
|-
|143
|right parietal bone
|style="background:rgb(229,204,109)"|rgb(229,204,109)
|
|
|
|
|
|
|
|
|-
|144
|left parietal bone
|style="background:rgb(229,204,109)"|rgb(229,204,109)
|
|
|
|
|
|
|
|
|-
|145
|right temporal bone
|style="background:rgb(255,243,152)"|rgb(255,243,152)
|
|
|
|
|
|
|
|
|-
|146
|left temporal bone
|style="background:rgb(255,243,152)"|rgb(255,243,152)
|
|
|
|
|
|
|
|
|-
|147
|right sphenoid bone
|style="background:rgb(209,185,85)"|rgb(209,185,85)
|
|
|
|
|
|
|
|
|-
|148
|left sphenoid bone
|style="background:rgb(209,185,85)"|rgb(209,185,85)
|
|
|
|
|
|
|
|
|-
|149
|right ethmoid bone
|style="background:rgb(248,223,131)"|rgb(248,223,131)
|
|
|
|
|
|
|
|
|-
|150
|left ethmoid bone
|style="background:rgb(248,223,131)"|rgb(248,223,131)
|
|
|
|
|
|
|
|
|-
|151
|occipital bone
|style="background:rgb(255,230,138)"|rgb(255,230,138)
|
|
|
|
|
|
|
|
|-
|152
|maxilla
|style="background:rgb(196,172,68)"|rgb(196,172,68)
|
|
|
|
|
|
|
|
|-
|153
|right zygomatic bone
|style="background:rgb(255,255,167)"|rgb(255,255,167)
| DC: ? use more general (T-111BE,SRT,"Zygoma"); also, where is the left one ??
| (T-11167,SRT,"Zygomatic arch") - CID 4028
| (G-A100,SRT,"Right")
|
|
|
|
|
|-
|154
|right lacrimal bone
|style="background:rgb(255,250,160)"|rgb(255,250,160)
|
|
|
|
|
|
|
|
|-
|155
|vomer bone
|style="background:rgb(255,237,145)"|rgb(255,237,145)
|
|
|
|
|
|
|
|
|-
|156
|right palatine bone
|style="background:rgb(242,217,123)"|rgb(242,217,123)
|
| (T-111A8,SRT,"Palatine Bone")
| (G-A100,SRT,"Right")
|
|
|
|
|
|-
|157
|left palatine bone
|style="background:rgb(242,217,123)"|rgb(242,217,123)
|
| (T-111A8,SRT,"Palatine Bone")
| (G-A101,SRT,"Left")
|
|
|
|
|
|-
|158
|mandible
|style="background:rgb(222,198,101)"|rgb(222,198,101)
|
|
|
|
|
|
|
|
|-
|159
|neck
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|160
|muscles of neck
|style="background:rgb(213,124,109)"|rgb(213,124,109)
|
|
|
|
|
|
|
|
|-
|161
|pharynx
|style="background:rgb(184,105,108)"|rgb(184,105,108)
|
|
|
|
|
|
|
|
|-
|162
|larynx
|style="background:rgb(150,208,243)"|rgb(150,208,243)
|
|
|
|
|
|
|
|
|-
|163
|thyroid gland
|style="background:rgb(62,162,114)"|rgb(62,162,114)
|
|
|
|
|
|
|
|
|-
|164
|right parathyroid glands
|style="background:rgb(62,162,114)"|rgb(62,162,114)
|
|
|
|
|
|
|
|
|-
|165
|left parathyroid glands
|style="background:rgb(62,162,114)"|rgb(62,162,114)
|
|
|
|
|
|
|
|
|-
|166
|skeleton of neck
|style="background:rgb(242,206,142)"|rgb(242,206,142)
|
|
|
|
|
|
|
|
|-
|167
|hyoid bone
|style="background:rgb(250,210,139)"|rgb(250,210,139)
|
|
|
|
|
|
|
|
|-
|168
|cervical vertebral column
|style="background:rgb(255,255,207)"|rgb(255,255,207)
|
|
|
|
|
|
|
|
|-
|169
|thorax
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|170
|trachea
|style="background:rgb(182,228,255)"|rgb(182,228,255)
|
|
|
|
|
|
|
|
|-
|171
|bronchi
|style="background:rgb(175,216,244)"|rgb(175,216,244)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-26000,SRT,"Bronchi") - CID 7155
|
|-
|172
|right lung
|style="background:rgb(197,165,145)"|rgb(197,165,145)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-28000,SRT,"Lung") - CID 7155
| (G-A100,SRT,"Right")
|-
|173
|left lung
|style="background:rgb(197,165,145)"|rgb(197,165,145)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-28000,SRT,"Lung") - CID 7155
| (G-A101,SRT,"Left")
|-
|174
|superior lobe of right lung
|style="background:rgb(172,138,115)"|rgb(172,138,115)
|
|
|
|
|
|
|
|
|-
|175
|superior lobe of left lung
|style="background:rgb(172,138,115)"|rgb(172,138,115)
|
|
|
|
|
|
|
|
|-
|176
|middle lobe of right lung
|style="background:rgb(202,164,140)"|rgb(202,164,140)
|
|
|
|
|
|
|
|
|-
|177
|inferior lobe of right lung
|style="background:rgb(224,186,162)"|rgb(224,186,162)
|
|
|
|
|
|
|
|
|-
|178
|inferior lobe of left lung
|style="background:rgb(224,186,162)"|rgb(224,186,162)
|
|
|
|
|
|
|
|
|-
|179
|pleura
|style="background:rgb(255,245,217)"|rgb(255,245,217)
|
|
|
|
|
|
|
|
|-
|180
|heart
|style="background:rgb(206,110,84)"|rgb(206,110,84)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-32000,SRT,"Heart") - CID 7152
|
|-
|181
|right atrium
|style="background:rgb(210,115,89)"|rgb(210,115,89)
|
|
|
|
|
|
|
|
|-
|182
|left atrium
|style="background:rgb(203,108,81)"|rgb(203,108,81)
|
|
|
|
|
|
|
|
|-
|183
|atrial septum
|style="background:rgb(233,138,112)"|rgb(233,138,112)
|
|
|
|
|
|
|
|
|-
|184
|ventricular septum
|style="background:rgb(195,100,73)"|rgb(195,100,73)
|
|
|
|
|
|
|
|
|-
|185
|right ventricle of heart
|style="background:rgb(181,85,57)"|rgb(181,85,57)
| DC: SRT code is precordinated; no need for laterality modifier
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-32500,SRT,"Right Ventricle") - CID 7152
|
|-
|186
|left ventricle of heart
|style="background:rgb(152,55,13)"|rgb(152,55,13)
| DC: SRT code is precordinated; no need for laterality modifier
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-32600,SRT,"Left Ventricle") - CID 7152
|
|-
|187
|mitral valve
|style="background:rgb(159,63,27)"|rgb(159,63,27)
|
|
|
|
|
|
|
|
|-
|188
|tricuspid valve
|style="background:rgb(166,70,38)"|rgb(166,70,38)
|
|
|
|
|
|
|
|
|-
|189
|aortic valve
|style="background:rgb(218,123,97)"|rgb(218,123,97)
|
|
|
|
|
|
|
|
|-
|190
|pulmonary valve
|style="background:rgb(225,130,104)"|rgb(225,130,104)
|
|
|
|
|
|
|
|
|-
|191
|aorta
|style="background:rgb(224,97,76)"|rgb(224,97,76)
| DC: ? need specific parts (ascending, arch, descending thoracic, abdominal)
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-42000,SRT,"Aorta") - CID 7152
|
|-
|192
|pericardium
|style="background:rgb(255,244,209)"|rgb(255,244,209)
|
|
|
|
|
|
|
|
|-
|193
|pericardial cavity
|style="background:rgb(184,122,154)"|rgb(184,122,154)
|
|
|
|
|
|
|
|
|-
|194
|esophagus
|style="background:rgb(211,171,143)"|rgb(211,171,143)
|
|
|
|
|
|
|
|
|-
|195
|thymus
|style="background:rgb(47,150,103)"|rgb(47,150,103)
|
|
|
|
|
|
|
|
|-
|196
|mediastinum
|style="background:rgb(255,244,209)"|rgb(255,244,209)
|
|
|
|
|
|
|
|
|-
|197
|skin of thoracic wall
|style="background:rgb(173,121,88)"|rgb(173,121,88)
|
|
|
|
|
|
|
|
|-
|198
|muscles of thoracic wall
|style="background:rgb(188,95,76)"|rgb(188,95,76)
|
|
|
|
|
|
|
|
|-
|199
|skeleton of thorax
|style="background:rgb(255,239,172)"|rgb(255,239,172)
|
|
|
|
|
|
|
|
|-
|200
|thoracic vertebral column
|style="background:rgb(226,202,134)"|rgb(226,202,134)
|
|
|
|
|
|
|
|
|-
|201
|ribs
|style="background:rgb(253,232,158)"|rgb(253,232,158)
|
|
|
|
|
|
|
|
|-
|202
|sternum
|style="background:rgb(244,217,154)"|rgb(244,217,154)
|
|
|
|
|
|
|
|
|-
|203
|right clavicle
|style="background:rgb(205,179,108)"|rgb(205,179,108)
|
|
|
|
|
|
|
|
|-
|204
|left clavicle
|style="background:rgb(205,179,108)"|rgb(205,179,108)
|
|
|
|
|
|
|
|
|-
|205
|abdominal cavity
|style="background:rgb(186,124,161)"|rgb(186,124,161)
|
|
|
|
|
|
|
|
|-
|206
|abdomen
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|207
|peritoneum
|style="background:rgb(255,255,220)"|rgb(255,255,220)
|
|
|
|
|
|
|
|
|-
|208
|omentum
|style="background:rgb(234,234,194)"|rgb(234,234,194)
|
|
|
|
|
|
|
|
|-
|209
|peritoneal cavity
|style="background:rgb(204,142,178)"|rgb(204,142,178)
|
|
|
|
|
|
|
|
|-
|210
|retroperitoneal space
|style="background:rgb(180,119,153)"|rgb(180,119,153)
|
|
|
|
|
|
|
|
|-
|211
|stomach
|style="background:rgb(216,132,105)"|rgb(216,132,105)
|
|
|
|
|
|
|
|
|-
|212
|duodenum
|style="background:rgb(255,253,229)"|rgb(255,253,229)
|
|
|
|
|
|
|
|
|-
|213
|small bowel
|style="background:rgb(205,167,142)"|rgb(205,167,142)
|
|
|
|
|
|
|
|
|-
|214
|colon
|style="background:rgb(204,168,143)"|rgb(204,168,143)
|
|
|
|
|
|
|
|
|-
|215
|anus
|style="background:rgb(255,224,199)"|rgb(255,224,199)
|
|
|
|
|
|
|
|
|-
|216
|liver
|style="background:rgb(221,130,101)"|rgb(221,130,101)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-62000,SRT,"Liver") - CID 7154
|
|-
|217
|biliary tree
|style="background:rgb(0,145,30)"|rgb(0,145,30)
|
|
|
|
|
|
|
|
|-
|218
|gallbladder
|style="background:rgb(139,150,98)"|rgb(139,150,98)
|
|
|
|
|
|
|
|
|-
|219
|pancreas
|style="background:rgb(249,180,111)"|rgb(249,180,111)
|
|
|
|
|
|
|
|
|-
|220
|spleen
|style="background:rgb(157,108,162)"|rgb(157,108,162)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-C3000,SRT,"Spleen) - CID 7154
|
|-
|221
|urinary system
|style="background:rgb(203,136,116)"|rgb(203,136,116)
|
|
|
|
|
|
|
|
|-
|222
|right kidney
|style="background:rgb(185,102,83)"|rgb(185,102,83)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-71000,SRT,"Kidney") - CID 7154
| (G-A100,SRT,"Right")
|-
|223
|left kidney
|style="background:rgb(185,102,83)"|rgb(185,102,83)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-71000,SRT,"Kidney") - CID 7154
| (G-A101,SRT,"Left")
|-
|224
|right ureter
|style="background:rgb(247,182,164)"|rgb(247,182,164)
|
|
|
|
|
|
|
|
|-
|225
|left ureter
|style="background:rgb(247,182,164)"|rgb(247,182,164)
|
|
|
|
|
|
|
|
|-
|226
|urinary bladder
|style="background:rgb(222,154,132)"|rgb(222,154,132)
|
|
|
|
|
|
|
|
|-
|227
|urethra
|style="background:rgb(124,186,223)"|rgb(124,186,223)
|
|
|
|
|
|
|
|
|-
|228
|right adrenal gland
|style="background:rgb(249,186,150)"|rgb(249,186,150)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-B3000,SRT,"Adrenal Gland")
| (G-A100,SRT,"Right")
|-
|229
|left adrenal gland
|style="background:rgb(249,186,150)"|rgb(249,186,150)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-B3000,SRT,"Adrenal Gland")
| (G-A101,SRT,"Left")
|-
|230
|female internal genitalia
|style="background:rgb(244,170,147)"|rgb(244,170,147)
|
|
|
|
|
|
|
|
|-
|231
|uterus
|style="background:rgb(255,181,158)"|rgb(255,181,158)
|
|
|
|
|
|
|
|
|-
|232
|right fallopian tube
|style="background:rgb(255,190,165)"|rgb(255,190,165)
|
|
|
|
|
|
|
|
|-
|233
|left fallopian tube
|style="background:rgb(227,153,130)"|rgb(227,153,130)
|
|
|
|
|
|
|
|
|-
|234
|right ovary
|style="background:rgb(213,141,113)"|rgb(213,141,113)
|
|
|
|
|
|
|
|
|-
|235
|left ovary
|style="background:rgb(213,141,113)"|rgb(213,141,113)
|
|
|
|
|
|
|
|
|-
|236
|vagina
|style="background:rgb(193,123,103)"|rgb(193,123,103)
|
|
|
|
|
|
|
|
|-
|237
|male internal genitalia
|style="background:rgb(216,146,127)"|rgb(216,146,127)
|
|
|
|
|
|
|
|
|-
|238
|prostate
|style="background:rgb(230,158,140)"|rgb(230,158,140)
|
|
|
|
|
|
|
|
|-
|239
|right seminal vesicle
|style="background:rgb(245,172,147)"|rgb(245,172,147)
|
|
|
|
|
|
|
|
|-
|240
|left seminal vesicle
|style="background:rgb(245,172,147)"|rgb(245,172,147)
|
|
|
|
|
|
|
|
|-
|241
|right deferent duct
|style="background:rgb(241,172,151)"|rgb(241,172,151)
|
|
|
|
|
|
|
|
|-
|242
|left deferent duct
|style="background:rgb(241,172,151)"|rgb(241,172,151)
|
|
|
|
|
|
|
|
|-
|243
|skin of abdominal wall
|style="background:rgb(177,124,92)"|rgb(177,124,92)
|
|
|
|
|
|
|
|
|-
|244
|muscles of abdominal wall
|style="background:rgb(171,85,68)"|rgb(171,85,68)
|
|
|
|
|
|
|
|
|-
|245
|skeleton of abdomen
|style="background:rgb(217,198,131)"|rgb(217,198,131)
|
|
|
|
|
|
|
|
|-
|246
|lumbar vertebral column
|style="background:rgb(212,188,102)"|rgb(212,188,102)
|
|
|
|
|
|
|
|
|-
|247
|female external genitalia
|style="background:rgb(185,135,134)"|rgb(185,135,134)
|
|
|
|
|
|
|
|
|-
|248
|male external genitalia
|style="background:rgb(185,135,134)"|rgb(185,135,134)
|
|
|
|
|
|
|
|
|-
|249
|skeleton of upper limb
|style="background:rgb(198,175,125)"|rgb(198,175,125)
|
|
|
|
|
|
|
|
|-
|250
|muscles of upper limb
|style="background:rgb(194,98,79)"|rgb(194,98,79)
|
|
|
|
|
|
|
|
|-
|251
|right upper limb
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|252
|left upper limb
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|253
|right shoulder
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|254
|left shoulder
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|255
|right arm
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|256
|left arm
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|257
|right elbow
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|258
|left elbow
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|259
|right forearm
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|260
|left forearm
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|261
|right wrist
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|262
|left wrist
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|263
|right hand
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|264
|left hand
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|265
|skeleton of lower limb
|style="background:rgb(255,238,170)"|rgb(255,238,170)
|
|
|
|
|
|
|
|
|-
|266
|muscles of lower limb
|style="background:rgb(206,111,93)"|rgb(206,111,93)
|
|
|
|
|
|
|
|
|-
|267
|right lower limb
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|268
|left lower limb
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|269
|right hip
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|270
|left hip
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|271
|right thigh
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|272
|left thigh
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|273
|right knee
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|274
|left knee
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|275
|right leg
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|276
|left leg
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|277
|right foot
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|278
|left foot
|style="background:rgb(177,122,101)"|rgb(177,122,101)
|
|
|
|
|
|
|
|
|-
|279
|peripheral nervous system
|style="background:rgb(216,186,0)"|rgb(216,186,0)
|
|
|
|
|
|
|
|
|-
|280
|autonomic nerve
|style="background:rgb(255,226,77)"|rgb(255,226,77)
|
|
|
|
|
|
|
|
|-
|281
|sympathetic trunk
|style="background:rgb(255,243,106)"|rgb(255,243,106)
|
|
|
|
|
|
|
|
|-
|282
|cranial nerves
|style="background:rgb(255,234,92)"|rgb(255,234,92)
|
|
|
|
|
|
|
|
|-
|283
|vagus nerve
|style="background:rgb(240,210,35)"|rgb(240,210,35)
|
|
|
|
|
|
|
|
|-
|284
|peripheral nerve
|style="background:rgb(224,194,0)"|rgb(224,194,0)
|
|
|
|
|
|
|
|
|-
|285
|circulatory system
|style="background:rgb(213,99,79)"|rgb(213,99,79)
|
|
|
|
|
|
|
|
|-
|286
|systemic arterial system
|style="background:rgb(217,102,81)"|rgb(217,102,81)
|
|
|
|
|
|
|
|
|-
|287
|systemic venous system
|style="background:rgb(0,147,202)"|rgb(0,147,202)
|
|
|
|
|
|
|
|
|-
|288
|pulmonary arterial system
|style="background:rgb(0,122,171)"|rgb(0,122,171)
|
|
|
|
|
|
|
|
|-
|289
|pulmonary venous system
|style="background:rgb(186,77,64)"|rgb(186,77,64)
|
|
|
|
|
|
|
|
|-
|290
|lymphatic system
|style="background:rgb(111,197,131)"|rgb(111,197,131)
|
|
|
|
|
|
|
|
|-
|291
|needle
|style="background:rgb(240,255,30)"|rgb(240,255,30)
|
|
|
|
|
| (A-00004,SRT,"Physical Object")
| (A-30360,SRT,"Needle") - CID 7157++
|
|-
|292
|region 0
|style="background:rgb(185,232,61)"|rgb(185,232,61)
|
|
|
|
|
|
|
|
|-
|293
|region 1
|style="background:rgb(0,226,255)"|rgb(0,226,255)
|
|
|
|
|
|
|
|
|-
|294
|region 2
|style="background:rgb(251,159,255)"|rgb(251,159,255)
|
|
|
|
|
|
|
|
|-
|295
|region 3
|style="background:rgb(230,169,29)"|rgb(230,169,29)
|
|
|
|
|
|
|
|
|-
|296
|region 4
|style="background:rgb(0,194,113)"|rgb(0,194,113)
|
|
|
|
|
|
|
|
|-
|297
|region 5
|style="background:rgb(104,160,249)"|rgb(104,160,249)
|
|
|
|
|
|
|
|
|-
|298
|region 6
|style="background:rgb(221,108,158)"|rgb(221,108,158)
|
|
|
|
|
|
|
|
|-
|299
|region 7
|style="background:rgb(137,142,0)"|rgb(137,142,0)
|
|
|
|
|
|
|
|
|-
|300
|region 8
|style="background:rgb(230,70,0)"|rgb(230,70,0)
|
|
|
|
|
|
|
|
|-
|301
|region 9
|style="background:rgb(0,147,0)"|rgb(0,147,0)
|
|
|
|
|
|
|
|
|-
|302
|region 10
|style="background:rgb(0,147,248)"|rgb(0,147,248)
|
|
|
|
|
|
|
|
|-
|303
|region 11
|style="background:rgb(231,0,206)"|rgb(231,0,206)
|
|
|
|
|
|
|
|
|-
|304
|region 12
|style="background:rgb(129,78,0)"|rgb(129,78,0)
|
|
|
|
|
|
|
|
|-
|305
|region 13
|style="background:rgb(0,116,0)"|rgb(0,116,0)
|
|
|
|
|
|
|
|
|-
|306
|region 14
|style="background:rgb(0,0,255)"|rgb(0,0,255)
|
|
|
|
|
|
|
|
|-
|307
|region 15
|style="background:rgb(157,0,0)"|rgb(157,0,0)
|
|
|
|
|
|
|
|
|-
|308
|unknown
|style="background:rgb(100,100,130)"|rgb(100,100,130)
|
|
|
|
|
|
|
|
|-
|309
|cyst
|style="background:rgb(205,205,100)"|rgb(205,205,100)
|
|
|
|
|
|
|
|
|-
|}

==New labels added==

{| class="wikitable sortable labelpage labelpagetable" border="1"
! integer_label
! text_label
! color
! notes
! anatomic region
! anatomic region modifier
! primary anatomic structure
! primary anatomic structure modifier
! segmented property category - CID 7150
! segmented property type
! segmented property type modifier
|-
| ??
|rectum
|style="background:rgb(0,0,0);color:white"|rgba(?,?,?,?)
|
|
|
|
|
| (M-01000,SRT,"Morphologically Altered Structure")
| (M-3340A,SRT,"Cyst") - CID 7159
|
|-
| ??
| left testis
|style="background:rgb(0,0,0);color:white"|rgba(?,?,?,?)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-94000,SRT,"Testis") - CID 7160
|
|-
| ??
| right testis
|style="background:rgb(0,0,0);color:white"|rgba(?,?,?,?)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-94000,SRT,"Testis") - CID 7160
|
|-
| ??
| cervix
|style="background:rgb(0,0,0);color:white"|rgba(?,?,?,?)
|
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-83200,SRT,"Cervix") - CID 7160
|
|-
| ??
| diaphragm
|style="background:rgb(0,0,0);color:white"|rgba(?,?,?,?)
| DC: ? need left/right - probably not
|
|
|
|
| (T-D000A,SRT,"Anatomical Structure")
| (T-D3400,SRT,"Diaphragm) - CID 7155
|
|-
| ??
| table
|style="background:rgb(0,0,0);color:white"|rgba(?,?,?,?)
| DC: cf. 9 - table detection is handled specifically by some systems
|
|
|
|
| (A-00004,SRT,"Physical Object")
| (A-17350,SRT,"Table") - CID 7158
|
|-
| ??
| clothing
|style="background:rgb(0,0,0);color:white"|rgba(?,?,?,?)
| cf. 9
|
|
|
|
| (A-00004,SRT,"Physical Object")
| (A-00916,SRT,"Clothing") - CID 7158
|
|-
|}

Segmentation objects allow to encode recommended display color in "Recommended Display CIELab Value" (0062,000D) attribute; these values are encoded in [http://en.wikipedia.org/wiki/Lab_color_space CIALab].

Events:CTK-Workshop-June-2009

2009-06-30T09:24:53Z

Dclunie: /* Day 1 */

=The Common Toolkit Workshop at the [http://www.dkfz.de/index.html DKFZ] in Heidelberg, Germany hosted by the [http://www.dkfz-heidelberg.de/en/mbi/index.html MBI].=

The purpose of this workshop was to convene a number of groups who are working on FOSS Medical Image Computing platform development using BSD style licenses and to explore meaningful ways of coordination and integration. Day one of the meeting consisted of briefing each other about the softwares, day two was for brainstorming and concept development.

=Day 1=
June 29 2009
Presentation of platform / toolkit efforts. Names of the actual presenters are listed.
<gallery widths="150px" heights="150px" perrow="4">
image:KitwareLogo2.jpg|[[media:CTK-KitwareOverview-Aylward.ppt|ITK, VTK, IGSTK, InfoVis, FARSIGHT, Maverick]] (Stephen Aylward)
image:3DSlicerLogo-H-Color-424x236.png|[[media:3D-Slicer-presentation-June-29-2009.ppt|Slicer3]] (Ron Kikinis, Steve Pieper)
image:INRIAlogo.png|[[media:MedINRIA-presentation-June-29-2009.ppt|MedINRIA]] (Olivier Clatz, Julien Wintz)
image:Siemens-logo.jpg|[[media:SCR_CTK_XIP.pdf|OpenXIP Extensible Imaging Platform]] (Gianluca Paladini)
image:B3C.png|[[media:Pres_maf3_Heidelberg2009.pdf‎|MAF3]] (Paolo Quadrani)
image:Mitk-logo.png|[[media:MITK-CTK-Workshop-June2009.ppt‎|MITK]] (Ivo Wolf, Marco Nolden)
image:3DSlicerLogo-H-Color-424x236.png|Working Group 23 (Lawrence Tarbox)
image:RadPharmLogo.gif|[[media:CTK_2009_Heidelberg_Clunie.ppt|What can we learn from PACS development]] (David Clunie)
</gallery>

=Day 2=

File:RadPharmLogo.gif

2009-06-30T09:23:18Z

Dclunie:

File:CTK 2009 Heidelberg Clunie.ppt

2009-06-30T09:11:36Z

Dclunie: