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SDIWG:Ongoing Discussion 2011

2011-03-15T19:47:00Z

Zohara:

Meeting notes for NIH Roadmap National Centers for Biomedical Computing (NCBC) Centers to discuss plans for the last four years (2011-2015) of the NCBC effort

Link to [http://na-mic.org/Wiki/index.php/SDIWG:Software_and_Data_Integration_Working_Group_(SDIWG)_and_Centers_Discussion NCBC Working Groups], and [http://na-mic.org/Wiki/index.php/SDIWG:Ongoing_Discussion discussions with PIs in 2004-2005]

Link to [http://www.ncbcs.org/summary.html The current list of NIH NCBC Project Team members and other information on the Centers Portal]

== Discussion Points: General ==
On behalf of the NCBC Project Team Peter Lyster is calling the PIs to discuss their thoughts on future joint activities of the NCBCs. After the output has been collected and published on the wiki the plan is to have a joint-PIs tcon with NIH staff to plan the next four years of joint activities.

* What are we going to do to plan a legacy so that program and the community can know the progress after 10 years, so that future leaders in government and research community plan future programs can plan and scientists can plan future efforts in computational science (BICB) at different scales from R01s up to Centers?

* Five years ago I had similar phone calls with PIs. Original minutes on discussion with PIs is on the NCBC wiki at http://na-mic.org/Wiki/index.php/SDIWG:Software_and_Data_Integration_Working_Group_(SDIWG)_and_Centers_Discussion, more particularly http://na-mic.org/Wiki/index.php/SDIWG:Ongoing_Discussion

* There are a number of thoughts on the table, e.g., joint outreach efforts of the investigator teams such as: session at significant meeting; contribution to a joint issue of BCR; a significant review paper; keep improving the outreach through the portal http://www.ncbcs.org/ … We want to hear from you.

* In addition, the Project team would like for ideas/input from PIs for the next AHM/NCBCmeeting

== Tcon on February 2 with Kikinis NA-MIC team ==
Topic: Plans for joint activities among NCBCS for the next 4 years.

20110201: Tcon with NA-MIC Center

Attendees: Ron Kikinis, Will Schroeder, Zohara Cohen, Mike Ackerman, Peter Lyster (notes)

Minutes:

Peter: Introduction: for the last five years we have run three-monthly tcon called “NCBC Working Groups” (was originally “Software and Data Integration Working Groups”). This is been successful in informal information exchange between Centers, initiating relationships that have often led to progress.

Peter Suggests: Claim victory, dissolve old working groups; we can continue with the efforts, especially the portal (although need to get word out about that: is it linked to all PIs pages?). I suggest that in the next four years we address (i) outreach and (ii) impact.

Zohara: What is status press release? Peter: Probably not from NIH. New Center had an announcement.

Ron: Big P. Issue, we were selected to cover large area, and with very little overlap. NA-MIC has some obvious interactions with other Centers (Simbios/SimTK, i2b2,…).

Peter: Original SDIWG/Working Groups had larger vision, but there was no reason to force interactions (e.g., standards for software engineering). Thus we did not do interoperability tests (which can be ‘toy problems’), but is there still room for this now that the Centers have matured?

Zohara: Perhaps we shouldn't focus on interoperability between Centers, but on adoption of the tools by the broader biomedical computing community. We need to get word out about all range of our activities.

Peter: Possible article in BCR (Stanford Biomedical Computational Review http://biomedicalcomputationreview.org/, which is funded under Simbios). Russ Altman (PI Simbios) has indicated he is enthusiastic to take on a role here.

Ron: Biositemaps is 50 foot view. But need 5000 foot view of Centers.

Peter: Previous applications for funding haven’t done good job of convincing reviewers as a whole; it is difficult to write interesting by sufficiently detailed applications for funding in scientific computing. A related issue is then outreach, e.g., can we get the word out about accomplishments through editorials, command performances at large meetings, … how about a large review article spanning detailed content of Biomedical Informatics and Computational Biology (BICB). The first cut of that is perhaps the article of Morris et al 2002 after the first BISTI symposium. [ref: Morris et al. “Digital Biology: an emerging and promising discipline”, Trends in Biotechnology, 23(3), 113-117 (2005).]

Ron: Detail is in the content of the applications. Integrating the content into coherent picture is a lot of work and difficult.

Peter: Approach at first is to have ‘volunteer’ e.g., to run tcons, the portal, run tcons to develop impact document. Under the current system of running tcons ever couple of months there is a sense that ‘Peter will handle things’. If we can parse out responsibility for organizing the efforts then there will be more shared responsibility.

Ron: It depends on interest from NIH. Peter: the NIH is interested but the content is likely too much for Program Staff to gather, edit, coordinate on their own. Needs more ‘volunteer’ effort from NCBCs to step up to leadership, e.g., edit a joint review journal article.

Ron: No program officer knows that content of all Centers, but then no PI does either.

Peter: Yes, a volunteer would need to lead a collective effort.

Zohara: Can we hire a contractor to help with, say, a large review article? Peter: Let’s talk with Karin.

Peter: Also, don’t forget about nuts and bolts: how often tcon to share news of day.

== Tcon on March 4 with Califano MAGNet team ==
Topic: Plans for joint activities among NCBCS for the next 4 years.

20110304: Tcon with MAGNet Center

Attendees: Ais Floratos, Andrea Califano, Dan Gallahan, Peter Lyster

Minutes:

Andrea: Lot of PIs will be working to find other sources of funding. Teams will be difficult to work in that environment. So how do we create legacy: many Centers will have different approach.

Dan: Similar sentiments. Unique situation. One of legacies is this thing about Roadmap -> IC which will cause Centers to align more with IC. If we are doing something that is good and useful to the community then why would we stop it? ICBP (Cancer sysbio) and NCBC program have science and infrastructure component (enabling technologies and enabling sciences).

Dan: Need to say something as an NCBC community. Could be beneficial to individual Centers as well. Need AHM as worthwhile endeavor.

Aris: Legacy. Is this about big P or small p? What does Peter think this is about?

Peter: I think it is primarily about getting the word out about all the achievements of small p. But here is how it spills over to big P: we know that our computing is magic, but our profile is low and reviewers tend to be negative about the way we write proposals.

Aris: There is a lot of effort on sequencing and handling the next gen data. Andrea is doing a lot of traveling and (proselytizing)

Peter: I want to propose that the PIs can do it as a team and have an impact.
Andrea: Knows computing is important, and knows that it will be a success. Centers actually don’t have a lot of common ground. Maybe can do a good job of proselytizing by liaising with own communities, for Andrea, it is systems biology at NCI, NIGMS, etc.

Dan: The computational efforts that are successful are seen as strong biological papers, but behind the scenes there is a lot of infrastructure.

Peter: It is more difficult to do both computing/biology. Always, biology has to be the driver.

Peter: Agrees that NCBCs proselytizing with own communities is important. Peter asks, when this is done do you say “Here I am, PI X funded by NCBC U54, and here is my work, and I’m here to show why the NCBC Program created this”. The key is can this be done by the NCBC PIs as a community? If PIs and senior leaders in NCBCs focus, e.g., through a series of regular phone calls, and at the AHM, then they can do separately?

Andrea: PIs have double legacy: one in their own area and community and institution, the other is the program.

Peter: To some extent we are in together. Think of this is program staff working with you all (cooperative agreement) to help promote impact/outreach.

Dan: Review paper will help the overall community. Not too onerous. Beneficial.

Andrea: Got TTD2 white paper on Biotechnology, all PIs signed, new approach for patient-centric therapeutics. We can do something like that here. Give program ammunition when we try to create new programs.

== Tcon on March 15 with Ohno-Machado iDASH team ==
Topic: Plans for joint activities among NCBCS for the next 4 years.

20110315: Tcon with iDASH Center

Attendees: Lucila Ohno-Machado, Heidi Sofia, Peter Good, Peter Lyster

Minutes:

Peter Lyster: Introduction to the past 5 years. Have regular phone calls. PIs often attended. Michigan runs Portal at http://www.ncbcs.org and still maintains the content. A lot of the early communication on the phone calls was helpful in exchanging information about software development approaches and centers appreciated the opportunity to get help from each other. Had three working groups which were quite active: (i) biositemaps-resourceome-Resource Discovery System (RDS) http://biositemaps.org/. A lot of help from Pittsburgh. (ii) Ontologies; (iii) impact as shown in the work on the http://www.ncbcs.org/

Lucila: Do we have stats on how many people access ncbcs.org? Peter doesn’t know. Needs iDASH on bottom of biositemaps.org page. Is already actively working with Pitt on CTSA and on the Resource Discovery System (RDS) that was developed with biositemaps; talking with Stanford (Musen yes, Altman to do) to talk about collaboration; familiar with i2b2. iTools is UCLA. How does one generate and publish a biositemaps file? Peter, here is [[Media:Biositemaps_Cheat_Sheet_20110315.pdf |Cheat Sheet for getting started in biositemps(customized for NCBCs)]]. Please use that to create and maintain your biositemaps.

Lucila: What are expectations? For example, October 23-26 AMIA in DC. Deadline is March 17. Lucila is organizing panel: may be Kikinis, Zac, Califano, Altman, Musen, Athey. Need four on Panel. Editor of AMIA Journal (Journal of American Medical Informatics Association JAMIA), is interested in this.

Peter: Working groups as formulated for first round is over. My thought is: what can we do to maximize the impact of our legacy at the end of the program (11 years from the start). Most of the impetus from this will come from PIs and their staff; in the past some have provided deep software development, or someone to run a web site… a lot of effort.

Peter Good: What should we do in an All Hands Meeting?

Lucila: It is difficult to tease out what PIs have? What has worked and what not. Can we have smaller meeting and do it without formality of presentations.

Peter Good: We realized seven years ago that we are not covering the waterfront. How do we maximize without overreaching, acknowledge gaps… say what we have.

Lucila: make it clear what gaps are. Possibly have doors closed session, acknowledge (i) gaps and (ii) what didn’t work. Of course a lot _did_ work so add that in. We should know that, the hard part is finding out what did not work. What is our position on important issues, e.g., shutting down of SRA (short read archive)?

Peter: We can ask, how do we (ncbcs) express our opinion? Get the word out on all media, not just ncbcs.org

Peter Good: how about ncbcs blog? Why not?

Lucila: There are a lot of media.

Peter Lyster: Any work needs regular attention. Need regular phone calls with senior people who focus on a regular basis on, say, media. Needs to be (i) regular, and (ii) proactive. Should be monthly or better.
Lucila: Has dissemination core codirector (Wendy Chapman). Maybe identify point person in each Centers.

Peter: Says it is difficult to describe large informatics efforts, can be pages of gray text. Yes we know that the output is ‘magic’. How do we do a better job of making the case with the community of biomedical researchers. Better ‘use cases’.

Lucila: Needs to explain what we do for audiences ourselves.

Action Items: Panel at AMIA. Wendy Chapman is dissemination person, may engage others. Review article on past 6 years, can start and might take a year. Will consider her journal. JAMIA or PLOS (Bourne journal). Maybe scientific video (SciVee) youtube for scientists. Pacific symposium?

Appendix A: Original charter of SDI (software and data integration): Charter of SDI: The RFA states the goal of creating “the networked national effort to build the computational infrastructure for biomedical computing for the nation”. Here is a link to the wording in the original RFA-RM-04-002 [1]. In furthering this, the goals of the SDIWG in concert with the Project Team and Centers staff are: 1. To advance the domain sciences, and promote software interoperability and data exchange. 2. To capture the collective knowledge of software engineering and practices among the Centers and publish this knowledge widely.

Appendix B: Original Working group had LSOs, Liaison from NCBC, Peter Lyster as Chair
Software and Data Integration Working Group
Peter Lyster (NIGMS, Chair) Stephan Bour (NIAID) Carol Bean (NCRR) Arthur Castle (NIDDK) German Cavelier (NIMH) Larry Clarke (NCI) Elaine Collier (NCRR) Peter Covitz (NCI) Jennifer Couch (NCI) Valentina Di Francesco (NIAID) Peter Good (NHGRI) John Haller (NIBIB) Donald Harrington (NIBIB) Peter Highnam (NCRR) Michael Huerta (NIMH) Jennie Larkin (NHLBI) Yuan Liu (NINDS) Michael Marron (NCRR) Richard Morris (NIAID) Bret Peterson (NCRR) Karen Skinner (NIDA) Michael Twery (NHLBI) Terry Yoo (NLM)

The current list of NIH NCBC Project Team members and other information on the centers can be found at http://www.ncbcs.org/summary.html

NA-MIC External Collaborations

2009-08-13T14:51:09Z

Zohara: added PAR for R21 collaboration on skull stripping

Back to [[NA-MIC_Collaborations|NA-MIC Collaborations]]

=Projects funded by "Collaborations with NCBC PAR"=

This section describes external collaborations with NA-MIC that are funded by NIH under the "Collaboration with NCBC" PAR. (Details for this funding mechanism are provided [[Collaborator:Resources|<big><big>here</big></big>]]).

{| style="text-align:left;"
| style="width:10%" | [[Image:Cli-mesh-quality-small-062607.png|thumb|left|300px|PAR-05-063: R01EB005973 Automated FE Mesh Development]]
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== [[NA-MIC_NCBC_Collaboration:Automated_FE_Mesh_Development|PAR-05-063: R01EB005973 Automated FE Mesh Development]] ==

This project is funded under an NCBC collaboration grant to PIs Nicole Grosland and Vincent Magnotta at UIowa. The goal of this project is to integrate and expand methods to automate the development of specimen- / patient-specific finite element (FE) models into the [[NA-MIC-Kit|NA-MIC kit]]. [[NA-MIC_NCBC_Collaboration:Automated_FE_Mesh_Development|More...]]

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==[[NA-MIC_NCBC_Collaboration:Measuring_Alcohol_and_Stress_Interaction|PAR-07-249: R01AA016748 Measuring Alcohol and Stress Interaction with Structural and Perfusion MRI]]==

This project is funded under an NCBC collaboration grant to PIs James Daunais, Robert Kraft, and Chris Wyatt. The goal of this project is to examine the the effects of chronic alcohol self- administration on brain structure and function the monkey brain. MRI image analysis tools from the [[NA-MIC-Kit|NA-MIC kit]] will be adapted for use with the monkey brain datasets. [[NA-MIC_NCBC_Collaboration:Measuring_Alcohol_and_Stress_Interaction|More...]]

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==[[NA-MIC_NCBC_Collaboration:An Integrated System for Image-Guided Radiofrequency Ablation of Liver Tumors|PAR-05-063: R01CA124377 An Integrated System for Image-Guided Radiofrequency Ablation of Liver Tumors]]==

This project is funded under an NCBC collaboration grant to PI Kevin Cleary at Georgetown University. The goal of this project is to develop and validate an integrated system based on open source software for improved visualization and probe placement during radiofrequency ablation (RFA) of liver tumors.[[NA-MIC_NCBC_Collaboration:An Integrated System for Image-Guided Radiofrequency Ablation of Liver Tumors|More...]]
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| | [[Image:HammerABrain.png|thumb|left|300px]]
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==[[NA-MIC_NCBC_Collaboration:Development and Dissemination of Robust Brain MRI Measurement Tools|PAR-07-249: R01EB006733 Development and Dissemination of Robust Brain MRI Measurement Tools]]==

This project is funded under an NCBC collaboration grant to PI Dinggang Shen at UNC-Chapel Hill. The goal of this project is to develop and widely distribute a software package for robust measurement of brain structures in MR images using computational neuroanatomy methods.[[NA-MIC_NCBC_Collaboration:Development and Dissemination of Robust Brain MRI Measurement Tools|More...]]
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| | [[Image:Virtual Colonoscopy Auto Detection - Yoshida.png|thumb|left|300px]]
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==[[NA-MIC_NCBC_Collaboration:NA-MIC virtual colonoscopy|PAR-07-249: R01CA131718 NA-MIC virtual colonoscopy]]==

This project is funded under an NCBC collaboration grant to PI Hiroyuki Yoshida. The goal of this project is to [[NA-MIC_NCBC_Collaboration:NA-MIC virtual colonoscopy|More...]]
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| | [[Image:JHUCollaboration.jpg|thumb|left|300px]]
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==[[NA-MIC_NCBC_Collaboration:3D Shape Analysis for Computational Anatomy|PAR-07-249: R01 EB008171 3D Shape Analysis for Computational Anatomy]]==

This project is funded under an NCBC collaboration grant to PI Michael Miller JHU (with Joe Hennessey)
|-

| | [[Image:JHUSkullStripping.png|300px]]
| | [[Image:JHU.jpg|100px]]

==[[NA-MIC_JHU_Skull_Stripping_Collaboration | PAR-08-183: R21-EB009900 Johns Hopkins Skull Stripping]]==

The group at Johns Hopkins is developing software that enables the stripping of skull, scalp, and meninges from structural MRI scans in a fully automated fashion.

|}

=Additional External Collaborations=

This section describes external collaborations with NA-MIC that are funded by other mechanisms:

{| style="text-align:left;"
| style="width:10%" | [[Image:BRAINS.gif|thumb|left|300px]]
| style="width:90%" |

==[[NA-MIC Brains Collaboration| PAR-05-057: BRAINS Morphology and Image Analysis]]==

This project is a funded under a Continued Development and Maintenance of Software grant to PIs Vincent Magnotta, Hans Johnson, Jeremy Bockholt, and Nancy Andreasen at the University of Iowa. The goal of this project is to update the '''BRAINS''' image analysis software developed at the University of Iowa. [[NA-MIC Brains Collaboration|More...]]

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| | [[Image:LevelSetSegmentGUIModule_alpha.png|thumb|left|300px]]
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==[[NA-MIC VMTK Collaboration | Vascular Modeling Toolkit Collaboration]]==

Slicer as a platform for segmentation and geometric analysis of vascular segments and image-based computational fluid dynamics (CFD). [[NA-MIC VMTK Collaboration|More...]]

Collaboration with [http://villacamozzi.marionegri.it/~luca/ Luca Antiga] of the [http://www.marionegri.it Mario Negri Institute].

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| | [[Image:27y-leftabdcan-T6SQ-voltage-withheart4.png |thumb|left|300px]]
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==[[NA-MIC Childrens Collaboration| Children's Pediatric Cardiology Collaboration with SCI/SPL/Northeastern]]==

Collaboration with John Triedman, Matt Jolley, Dana Brooks, SCI.

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| | [[Image:NITRC.png|thumb|left|300px]]
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==[[NA-MIC and NITRC| NA-MIC Collaboration with NITRC]]==

The NA-MIC Project is working to make NA-MIC neuroimaging software available through the [http://www.nitrc.org/ NITRC web site]. Supplemental support is helping to create the [http://www.slicer.org/slicerWiki/index.php/Slicer3:Loadable_Modules Slicer3 Loadable Modules] project so that slicer plugins can be hosted on NITRC, allowing greater scalability for developers and users of Slicer.

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| | [[Image:Logo_nac.gif|thumb|left|100px|[http://nac.spl.harvard.edu NAC website]]]
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==[[Collaboration:NAC| NA-MIC Collaboration with NAC]]==

NAC, the neuroimage analysis center, is a national resource center. NAC is relying on the NA-MIC kit for its general software environment. The mission of NAC is to develop novel concepts for the analysis of images of the brain and develop and disseminate tools based on those concepts.

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| | [[Image:Ncigtlogo.gif|thumb|left|100px]]
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==[[Collaboration:NCIGT| NA-MIC Collaboration with NCIGT]]==

NCIGT is leveraging the NA-MIC kit as a platform for developing dedicated IGT capabilities.

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| | [[Image:AISTlogo.gif|thumb|left|100px]]
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==[[Collaboration:AIST| NA-MIC Collaboration with Research and Development Project on Intelligent Surgical Instruments]]==

Intelligent Surgical Instruments Projects uses Open-source software engineering tools developed by NA-MIC, and leverage it to surgical robotics.

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| | [[Image:ISML.gif|thumb|left|100px]]
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==[[Collaboration:UWA-Perth| Real Time Computer Simulation of Human Soft Organ Deformation for Computer Assisted Surgery]]==

Real Time Computer Simulation of Human Soft Organ Deformation for Computer Assisted Surgery.

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|-

| | [[Image:snapshot.gif|thumb|left|300px]]
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==[[Collaboration:College of William and Mary|Real-Time Computing for Image Guided Neurosurgery]]==

Using the Tera Grid to implement mesh-based non-rigid registration for Neurosurgery.

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| | [[Image:NCRR.png‎|300px]]
| | [[Image:Harvard.shield.png|100px]]

==[[Collaboration:Harvard CTSC| NA-MIC support for Harvard CTSC Translational Imaging Consortium]]==

The Harvard CTSC Translational Imaging Consortium is using NA-MIC communication tools to facilitate the rapid deployment of expertise in medical imaging acquisition, analysis and visualization to clinical translational investigators.

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==[http://slicer.spl.harvard.edu/slicerWiki/index.php/Stanford_Simbios_group Stanford Simbios]==

Our sister NCBC at Stanford, dedicated to biomedical simulation, is working to adapt NA-MIC image analysis routines generate simulation models directly from MRI scans.

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=Broader Community Involvement of NA-MIC Investigators=

This section describes external efforts that are not specifically NA-MIC collaborations but share personnel and/or technology:

{| style="text-align:left;"
| style="width:10%" | [[Image:placeholder.gif|thumb|left|300px]]
| style="width:90%" |

==[[Placeholder| Placeholder]]==

Placeholder

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| style="width:10%" | [[Image:placeholder.gif|thumb|left|300px]]
| style="width:90%" |

==[[Placeholder| Placeholder]]==

Placeholder

|}

NA-MIC External Collaborations

2009-08-13T14:50:23Z

2008-07-18T16:42:55Z

Zohara:

2007-01-11T19:01:42Z

Zohara: added name to NIH panel

= Venue =
Mariott City Center, Salt Lake City, Utah 
[http://marriott.com/property/meetingsandevents/floorplans/slccc <big><big>Floorplan</big></big>]

= Agenda =
{| border="1" cellpadding="5"
|- style="background:#c2c2c2; color:black" align="left"
| style="width:10%" | Time
| style="width:30%" | Wednesday, January 10
| style="width:30%" | Thursday, January 11
| style="width:30%" | Friday, January 12
|-
| style="background:#ffffdd; color:black"|
| style="background:#cbe2e5; color:black"|[[2007_Project_Half_Week|'''Project Activity''']] Capitol Room A,B
| style="background:#fff6a6; color:black"|<big>'''AHM'''</big> Capitol Ballroom '''Coding''' Olympus B
| style="background:#c4f4af; color:black"|[[EAB_Meeting|'''EAB''']], Olympus B [[2007_Project_Half_Week|'''Project Activity''']], Capitol B, C, Olympus A
|-
| style="background:#ffffdd; color:black"|'''07:30-08:00'''
| style="background:#cbe2e5; color:black"| Breakfast
| style="background:#fff6a6; color:black"| Breakfast
| style="background:#c4f4af; color:black"| Breakfast
|-
| style="background:#ffffdd; color:black"|'''08:00-09:00'''
| style="background:#cbe2e5; color:black"| [[Slicer3:Developers#Information_for_Developers | Slicer3 Developer Tutorial]] (Miller, Pieper)
| style="background:#fff6a6; color:black"| '''08:00-08:30''' [[media:RK-NAMIC-AHM-Intro-Thursday.ppt|Introduction]] (Kikinis)

'''08:30-09:00''' [[media:AHM-SLC-Jan2007-NAMIC-Kit-Update.ppt|NA-MIC Kit Update]] (Schroeder)
| style="background:#c4f4af; color:black"| '''08:00-12:00''' [[EAB_Meeting|EAB Meeting]]
[[2007_Project_Half_Week|Project Work]]
|-
| style="background:#ffffdd; color:black"|'''09:00-10:30'''
| style="background:#cbe2e5; color:black"| Slicer3 Tutorial Contd.
| style="background:#fff6a6; color:black"| '''09:00-09:15''' NA-MIC Kit Discussion (led by Gerig)

'''09:15-09:45''' [[ media:DTI-AHM_2007.ppt | DTI Update (Whitaker)]]

'''09:45-10:00''' DTI Discussion (led by Shenton)

'''10:00-10:30''' [[ media:StructuralTalkAHM2007.ppt | Structural Analysis Update (Styner) ]]

| style="background:#c4f4af; color:black"|[[EAB_Meeting|EAB Meeting Contd]]
[[2007_Project_Half_Week|Project Work]]
|-
| style="background:#ffffdd; color:black"|'''10:30-11:00'''
| style="background:#cbe2e5; color:black"| Coffee
| style="background:#fff6a6; color:black"|Coffee
| style="background:#c4f4af; color:black"|Coffee
|-
| style="background:#ffffdd; color:black"|'''11:00-12:00'''
| style="background:#cbe2e5; color:black"| [[AHM 2007:Slicer3 Developer Feedback|Slicer3 Developer Feedback]]
* [[AHM_2007:Slicer3_Developer_Feedback#DTI | DTI]] (O'Donnell, San Jose)
* [[AHM_2007:Slicer3_Developer_Feedback#EM | EM]] (Davis, Pohl)
* [[AHM_2007:Slicer3_Developer_Feedback#IGT | IGT]] (Hata, Liu)
| style="background:#fff6a6; color:black"|
'''11:00-11:15''' [[Media:points.ppt | Structural Analysis Discussion (led by Tannenbaum) ]]

'''11:15-11:30''' [[Media:NAMIC_AHM2007_fMRI.ppt|fMRI Update (Wells)]]

'''11:30-11:45''' fMRI Discussion (led by Saykin)

'''11:45-12:00''' [[media:2007_AHM_Dissemination.ppt|Dissemination]]‎ and [[media:AHM2007_Training_SPujol.ppt|Training]] Update (Pujol)

| style="background:#c4f4af; color:black"|[[EAB_Meeting|EAB Meeting Contd]]
[[2007_Project_Half_Week|Project Work]]
|-
| style="background:#ffffdd; color:black"|'''12:00-01:00'''
| style="background:#cbe2e5; color:black"| Lunch
| style="background:#fff6a6; color:black"| Lunch
| style="background:#c4f4af; color:black"| Lunch
|-
| style="background:#ffffdd; color:black"|'''01:00-02:00'''
| style="background:#cbe2e5; color:black"| [[2007_Project_Half_Week#Projects|Project Introductions]] (Miller)
| style="background:#fff6a6; color:black"|'''01:00-01:05''' Introduction to new DBPs(Kikinis)

'''01:05-01:25''' [[media:1-05-07-VCFS.ppt|Harvard: VCFS as a genetic model for schizophrenia]] (Kubicki)

'''01:25-01:40''' Discussion

'''01:40-02:00''' [[media:Fichtinger--NAMIC--AHS07.pdf|JHU: Image guided prostate interventions]] (Fichtinger)

| style="background:#c4f4af; color:black"| [[2007_Project_Half_Week|Project Work]]
|-
| style="background:#ffffdd; color:black"|'''02:00-03:30'''
| style="background:#cbe2e5; color:black"|
'''Parallel Sessions:'''

[[2007_Project_Half_Week|Project Work]]

Breakout Session: [[ Slicer3:EM#EMSegment_Tutorial | EM Segmentation Tutorial]] (Pohl, Davis)
| style="background:#fff6a6; color:black"|'''02:00-02:15''' Discussion

'''02:15-02:35''' [[media:Unm-dbp-summary.ppt|The Mind Institute: Vascular Components of Brain Disorders]] (Bockholt)

'''02:35-02:50''' Discussion

'''02:50-03:10''' [[media:Namic_ahm_jan07_longitud_aut_study.ppt|UNC: Longitudinal MRI study of early brain development (Cody)]]

'''03:10-03:25''' Discussion

'''03:25-03:30''' Conclusion (Kikinis)

| style="background:#c4f4af; color:black"| '''3pm''' Adjourn
|-
| style="background:#ffffdd; color:black"|'''03:30-04:00'''
| style="background:#cbe2e5; color:black"| Coffee
| style="background:#fff6a6; color:black"|Coffee
| style="background:#c4f4af; color:black"|
|-
| style="background:#ffffdd; color:black"|'''04:00-05:30'''
| style="background:#cbe2e5; color:black"| Project Work
| style="background:#fff6a6; color:black"|
'''04:00-04:15''' [[Media:NA-MIC_Mesh_Collaboration.ppt | UIowa Collaboration Grant]] (Grosland, Magnotta)

'''04:15-04:30''' [[Media:caBIG_IVI_Overview_NAMIC07.ppt| XIP: Open source application development environment in caBIG]] (Prior, EAB)

'''04:30-05:00''' Discussion (Aylward, Lorensen, Whitaker)

'''05.00-05.30''' [[AHM_2007:NIH_Panel_Discussion|NIH Lead Q&A]] (Peng, Ackerman, Cohen)

| style="background:#c4f4af; color:black"|
|-
| style="background:#ffffdd; color:black"|'''05:30-07:00'''
| style="background:#cbe2e5; color:black"| [[AHM_2007:Core_1_2_Site_PI_Mid_Cycle_Review|Mid Cycle Review with Core 1&2 Site PIs]] Olympus B
| style="background:#fff6a6; color:black"| [[AHM_2007:Party_at_Murphys | Party at Murphy's]] 6-9pm
| style="background:#c4f4af; color:black"|

|}

= Registration and Hotel Logistics =

'''Registration''': Online Registration is required for this meeting. Please follow this link to register online: http://www.sci.utah.edu/namic2007/. Please note that the registration fee is $215, and is payable by credit card or check. This fee covers the cost of the meeting facilities, but not the hotel rooms, which need to be booked separately.

'''Hotel''': Mariott City Center, Salt Lake City, Utah. Group rate is $119 per night and only available until December 5, 2006. Regular rate is $200+ so please keep this deadline in mind. To book a room, please call central reservations at 1-866-961-8700 and ask for the "Scientific Computing" group. Or please go online by clicking any of the links below or going to http://marriott.com/property/propertypage/SLCCC and typing "SCISCIA" under GROUP CODE.

= List of participants=
[[media:Registration List_AHM2007.xls|This is a list of attendees]]. Last updated 01/03/2007.

NIH-Page

2007-01-11T18:59:52Z

Zohara: updated a few NIH funding opps

* This page contains useful information provided by our NIH officers. Including pointers to announcements that might be of interest to NA-MIC participants.

== [[SDIWG:Software_and_Data_Integration_Working_Group|Software and Data Integration Working Group (SDIWG) and Centers Discussion]] ==

'''COMING EVENTS'''

* [[SDI:_Agenda_for_December16_New_Centers_meeting_in_Bethesda|Agenda for December 16 New Centers meeting in Bethesda]]

'''PAST EVENTS'''

* [[SDI:_Agenda_for_July_8_meeting_in_Bethesda|SDI: Agenda for July 8 meeting in Bethesda]]

== FUNDING OPPORTUNITIES ==

* '''NCBC Collaborations Program R01'''<nowiki>: </nowiki>http://grants.nih.gov/grants/guide/pa-files/PAR-07-249.html

* '''NCBC Collaborations Program R21'''<nowiki>: </nowiki>http://grants.nih.gov/grants/guide/pa-files/PAR-07-250.html

* Notice of Availability of Administrative Supplements for Neuroimaging Informatics Software Enhancement for Improved Interoperability and Dissemination (NIH Blueprint for Neuroscience Research) - http://grants.nih.gov/grants/guide/pa-files/NOT-EB-07-022

* Neuroimaging Informatics Software Enhancement for Improved nteroperability and Dissemination (R03) - http://grants.nih.gov/grants/guide/pa-files/RFA-EB-07-002

* [http://grants.nih.gov/grants/guide/notice-files/NOT-OD-05-063.html Notice of Intent to Publish Four Requests for Applications (RFAs) for Knockout Mouse Project (KOMP)(NOT-OD-05-063)National Institutes of Health]

* [http://grants.nih.gov/grants/guide/notice-files/NOT-RM-05-012.html Intention to Re-issue NIH Roadmap RFA, "Training for a New Interdisciplinary Research Workforce" (NOT-RM-05-012)NIH Roadmap Initiatives]

* [http://grants.nih.gov/grants/guide/pa-files/PA-05-151.htmlRuth L. Kirschstein National Research Service Awards for Individual Predoctoral MD/PhD Fellows (F30)(PA-05-151)National Institutes of Health](''Participating Institutes''<nowiki>: National Institute on Aging;National Institute on Alcohol Abuse and Alcoholism;National Institute on Drug Abuse;National Institute on Deafness and Other Communication Disorders;National Institute of Environmental Health Sciences;National Institute of Mental Health;National Institute of Neurological Disorders and Stroke;Office of Dietary Supplements)Application Receipt Date(s):Multiple dates, see announcement </nowiki>
* [http://grants.nih.gov/grants/guide/notice-files/NOT-RM-05-007.html NOT-RM-05-007: NIH Roadmap Administrative Supplements to Support Interdisciplinary Research in the Behavioral/Social and Biological Sciences]
* [http://grants.nih.gov/grants/guide/pa-files/PAR-05-063.html PAR-05-063: Collaborations with NCBCs]
* '''RFA:''' [http://grants.nih.gov/grants/guide/rfa-files/RFA-MH-05-010.html HIV and Psychiatric Comorbidity Research Project]
* [http://grants.nih.gov/grants/guide/pa-files/pa-02-127.html Mentored Quantitative Research Career Development Award (K25)]
* [http://nihroadmap.nih.gov/pioneer/ NIH Director's Pioneer Award]

== NOTICES AND ANNOUNCEMENTS ==

* [https://cabig.nci.nih.gov/News_Folder/OSS_License/view?searchterm=software%20license Request for Comments: Draft Open Source Software (OSS) Licensing Guidelines and Model License Agreement]

The Data Sharing & Intellectual Capital (DSIC) Working Group of caBIG sought feedback from the caBIG™ Community on Draft Open Source Software (OSS) Licensing Guidelines and Model License Agreement. Comments were to be sent to Dan Steinberg at [steinberg_daniel@bah.com], and were requested by May 31, 2005.

* [http://grants2.nih.gov/grants/guide/notice-files/NOT-HL-05-114.html NOT-HL-05-114:Request for Information (RFI): HLBS Ontology Inventory]

* [http://cabig.nci.nih.gov/guidelines_documentation/caBIG_Compat_Guide_Rev2_DRAFT4-5.pdf Draft caBIG Compatibility Guidelines Revision 2]

caBIG participants have provided extensive feedback on the caBIG Compatibility Guidelines. Revision 2 of the document incorporates that feedback, and is now available in draft form for additional public comment. Please send any comments you may have to ncicb@pop.nci.nih.gov. The final form of Revision 2 will be posted no later than June 2005, and at that time will become the prevailing operational guideline for the caBIG program.You can go to the [http://cabig.nci.nih.gov/guidelines_documentation caBIG Compatibility web page] for the latest version of the guidelines.