2016 Winter Project Week/Projects/SlicerCMFNextSteps - Revision history

Bpaniagua at 15:07, 8 January 2016

2016-01-08T15:07:47Z

Bpaniagua: /* Ideas and Minutes of meetings */

2016-01-08T15:00:11Z

Ideas and Minutes of meetings

Bpaniagua at 14:59, 8 January 2016

2016-01-08T14:59:15Z

Bpaniagua at 14:58, 8 January 2016

2016-01-08T14:58:30Z

Bpaniagua: /* Ideas and Minutes of meetings */

2016-01-06T21:37:48Z

Ideas and Minutes of meetings

Bpaniagua: /* Ideas and Minutes of meetings */

2016-01-06T20:46:13Z

Ideas and Minutes of meetings

Bpaniagua at 20:40, 6 January 2016

2016-01-06T20:40:50Z

Bpaniagua at 20:27, 6 January 2016

2016-01-06T20:27:14Z

Bpaniagua: /* Ideas and Minutes of meetings */

2016-01-06T20:25:39Z

Ideas and Minutes of meetings

Bpaniagua at 14:38, 6 January 2016

2016-01-06T14:38:15Z

@@ Line 43: / Line 43: @@
 # Chronicle as our storage system.
 # New data collection from existing funds from UMich and Bea's R21.
-We will work on drafting aims before March, to bounce ideas with the PO's at AADR2016. Aim1 and Aim2 clinical, Aim3 will be about creating a data standard, data storage and data query system.
+* We will work on drafting aims before March, to bounce ideas with the PO's at AADR2016. Aim1 and Aim2 clinical, Aim3 will be about creating a data standard, data storage and data query system.
 * Timeline:
 # First submission of project in July 2016.

← Older revision		Revision as of 15:00, 8 January 2016
Line 82:		Line 82:

	TCIA has all the identification and anonymization. CTP standard. Their project does not take care of it. We need to think what to do with it.		TCIA has all the identification and anonymization. CTP standard. Their project does not take care of it. We need to think what to do with it.
		+
		+	''Thursday, January 7th 2016''
		+	* DCBIA organizing work with Lucia.

@@ Line 39: / Line 39: @@
 <!-- Fill this out at the end of Project Week; describe what you did this week and what you plan to do next -->
 * Clear idea on what are the important points in our steps forward:
-- In order to be able to integrate our imaging results with other biomarkers collected, we need a more streamlined way to represent and store our data.
+# In order to be able to integrate our imaging results with other biomarkers collected, we need a more streamlined way to represent and store our data.
-- Great inspiration from the QIICR project: Work items to adopt the DICOM standard, create new snowmed terminology for CMF and new structured report fitting our research data.
+# Great inspiration from the QIICR project: Work items to adopt the DICOM standard, create new snowmed terminology for CMF and new structured report fitting our research data.
-- Chronicle as our storage system.
+# Chronicle as our storage system.
-- New data collection from existing funds from UMich and Bea's R21.
+# New data collection from existing funds from UMich and Bea's R21.
 We will work on drafting aims before March, to bounce ideas with the PO's at AADR2016. Aim1 and Aim2 clinical, Aim3 will be about creating a data standard, data storage and data query system.
 * Timeline:
-- First submission of project in July 2016.
+# First submission of project in July 2016.
-- New interns (arriving July 2016) will wrap up current modules and development work, and work in preliminary data for the grant.
+# New interns (arriving July 2016) will wrap up current modules and development work, and work in preliminary data for the grant.
-- First score in October 2016.
+# First score in October 2016.
-- Resubmission in February 2016 with further preliminary data.
+# Resubmission in February 2016 with further preliminary data.
 * Work items:
-- Lucia: draft clinical aims.
+# Lucia: draft clinical aims.
-- Bea: gather ideas from this meeting and communicate via email with Steve.
+# Bea: gather ideas from this meeting and communicate via email with Steve.
-- Steve: task list for preliminary work.
+# Steve: task list for preliminary work.
 |}

@@ Line 38: / Line 38: @@
+|
 <!-- Fill this out at the end of Project Week; describe what you did this week and what you plan to do next -->
-* Interesting discussions about persistence of data across modules in the Slicer extension breakout session
+* Clear idea on what are the important points in our steps forward:
-* Talks with Ron and Andrey about benefiting about the QIICR work.
+- In order to be able to integrate our imaging results with other biomarkers collected, we need a more streamlined way to represent and store our data.
 |}
@@ Line 54: / Line 67: @@
 ''Wednesday, January 6th 2016''
 * Talking with Steve Pieper about aims, sketch aims, is there anybody doing DICOM cephalometric standards (look for Dave Altobelly - 1993).
 * Look at FaceBase project.

← Older revision		Revision as of 21:37, 6 January 2016
Line 65:		Line 65:
	Main idea is to store data in DICOM format but use other research formats for analysis (including nrrd) and it is important to have converters.		Main idea is to store data in DICOM format but use other research formats for analysis (including nrrd) and it is important to have converters.
	Tools for DICOM conversion back and forth other formats.		Tools for DICOM conversion back and forth other formats.
		+
		+	TCIA has all the identification and anonymization. CTP standard. Their project does not take care of it. We need to think what to do with it.

← Older revision		Revision as of 20:46, 6 January 2016
Line 64:		Line 64:
	DICOM can encode different information, and you can use tools for displaying human readable data.		DICOM can encode different information, and you can use tools for displaying human readable data.
	Main idea is to store data in DICOM format but use other research formats for analysis (including nrrd) and it is important to have converters.		Main idea is to store data in DICOM format but use other research formats for analysis (including nrrd) and it is important to have converters.
		+	Tools for DICOM conversion back and forth other formats.

@@ Line 60: / Line 60: @@
 * [http://www.na-mic.org/Wiki/index.php/2016_Winter_Project_Week/Breakout_Sessions/QIICRTools QIICR Breakout session]:
 Imaging biomarkers is a great buzzword in our community. Different quantitative measurements, but none of them are imaging. Different biomarkers are being created but only few are applied to the clinic. Studies are not reproducible, its difficult to reproduce results, new environment is needed. Open source analysis tools, use standards to exchange results etc. Provide open source informatics infrastructure to support development of quantitative imaging biomarker analysis tools and standardize data sharing.
-DICOM has been changing to reflect the needs of the research community
+DICOM has been changing to reflect the needs of the research community.

@@ Line 58: / Line 58: @@
 * DICOM Michael Onke-- and DCMTK group
 * Structured reports in DICOM - Snowmed CT terminology is brought up into the DICOM standard
-* QIICR:
+* [http://www.na-mic.org/Wiki/index.php/2016_Winter_Project_Week/Breakout_Sessions/QIICRTools QIICR Breakout session]:
 Imaging biomarkers is a great buzzword in our community. Different quantitative measurements, but none of them are imaging. Different biomarkers are being created but only few are applied to the clinic. Studies are not reproducible, its difficult to reproduce results, new environment is needed. Open source analysis tools, use standards to exchange results etc. Provide open source informatics infrastructure to support development of quantitative imaging biomarker analysis tools and standardize data sharing.
 DICOM has been changing to reflect the needs of the research community

← Older revision		Revision as of 20:25, 6 January 2016
Line 58:		Line 58:
	* DICOM Michael Onke-- and DCMTK group		* DICOM Michael Onke-- and DCMTK group
	* Structured reports in DICOM - Snowmed CT terminology is brought up into the DICOM standard		* Structured reports in DICOM - Snowmed CT terminology is brought up into the DICOM standard
		+	* QIICR:
		+	Imaging biomarkers is a great buzzword in our community. Different quantitative measurements, but none of them are imaging. Different biomarkers are being created but only few are applied to the clinic. Studies are not reproducible, its difficult to reproduce results, new environment is needed. Open source analysis tools, use standards to exchange results etc. Provide open source informatics infrastructure to support development of quantitative imaging biomarker analysis tools and standardize data sharing.
		+	DICOM has been changing to reflect the needs of the research community

← Older revision		Revision as of 14:38, 6 January 2016
Line 54:		Line 54:

	''Wednesday, January 6th 2016''		''Wednesday, January 6th 2016''
−	* Talking with Steve Pieper about aims, sketch aims, is there anybody doing DICOM cephalometric standards.	+	* Talking with Steve Pieper about aims, sketch aims, is there anybody doing DICOM cephalometric standards (look for Dave Altobelly - 1993).
		+	* Look at FaceBase project.
		+	* DICOM Michael Onke-- and DCMTK group
		+	* Structured reports in DICOM - Snowmed CT terminology is brought up into the DICOM standard