WELCOMEFBIRN All Hands Meeting

October 26 and 27, 2009

FBIRN AHM

Housekeeping

Coffee breaks as needed

Lunch at noon at the University clubWireless connection instructions

Wiki page: https://xwiki.nbirn.org:8443/bin/view/Function-BIRN/FBIRN_Oct2009

– Viewable but not editable without logging in– Log in as yourself preferably – Or as Birn_users, password B|rnt (can’t edit that way, though)– Place slides on this lap top and on Wiki– Preferably keep notes separately and add to the wiki later, to avoid multiple users editing at

once

Please set cell phones and pagers to silence

1) Phase II data publications--Over sixteen peer-reviewed publications since this time last year--Eighteen conference posters and presentations--Phase II data being put into the BIRN Data Repository

2) Traveling Subjects, WCTS--Finished; clinical data in the UCI HID; imaging data on gridfTP--preprocessed data in /home/Projects/FBIRNSubject2007TW__0051/Data/WCTS-analysis.tgz

3) FBIRN Integrated Toolkit (FIRE)Major revisions to work with the new gridFTP intrastructureClinical tablet developments

4) Preparations for Phase III studyPilot runs at UCI, UCSF, UNM/MIND, Duke/UNC, Minn, UCLA, IA…

Where we were: Top Priorities 2009

Where we are: Top Priorities 2010

Recommendations to the fieldImage QA methods and toolsCalibrations/data collection methods and toolsAnalysis methods and toolsData sharing recommendations/toolsFull integration with the gridFTP/RLS infrastructure

Final testing step: Multi-site clinical studyCalibration, Cognitive protocol, Clinical protocolData QA, sharing, publication tools within FBIRNData curation and publication in the BDR

Example Query of Federated Database (2003)

fMRI

Does an emotional stimulus affect chronic SZ workingmemory more than healthy controls? (2009)

Integrated View

Receptor Density ERP

Web

PubMed,BrainMap

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Structure

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Clinical

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MediatorMediator

0.150.18

0.140.11

-0.14-0.10-0.06-0.020.020.060.100.140.180.220.260.30

ARIP - 20MG ARIP - 30MG RISP - 06MG PLACEBOTreatment Group

The Current Vision

Mediated query across databases this past March:

Multi-Site User Query

Data Provenance Information

Derived Data Processing

FIPS Results

FMRI/MRI Images Processing Pipelines

HIDB(s)Local

Data GridLocal

fMRI Scanner

Clinical Data Input

FBIRN Neuroinformatics VisionFBIRN Neuroinformatics Vision

DICOM, NIFTIDICOM, NIFTI

The original vision is subsumed by the larger vision…

NEW this year

FBIRN goals for this meeting: Summarize what we know to finish Phase III

Training in Phase III data collection for reduced intersite variability

Evaluate the Phase III protocol so far

Coordinate FIRE preparation and data uploads with the new infrastructure

How we do it: Today’s Agenda

Until 10 am: Working Group progress reports• Cognitive• Calibration• NI WG• Stats

10 am to noon: Everything you needed to know about Phase III (but were afraid to ask)

Pre imaging data collection

Agar phantom methods (Bryon)

Clinical tablet/HID interactions (Jeremy)

Imaging data collection (combination of Bryon, Jess, Judy, Jim, etc)

Data QA and analysis: What is automatic and what needs to be personally checked (and by whom)?

Data upload, QA, and schematron (Syam)

Data upload interactions with the HID and how to make that work (Dingying, Jeremy, NI WG)

Data review and dissemination pipeline (Doug, Greg B, Jerod, and others)

How we do it: Today’s Agenda

1:15 Mediated query demo: We need your feedback

1:30 to 4: Phase III protocol issues: Can we make it work in under 2 hours?

How we do it: Today’s Agenda

1:15 Mediated query demo: We need your feedback

1:30 to 4: Phase III protocol issues: Can we make it work in under 2 hours?

1:30 – 2:30 The data so far• Review of 7 runs of the new task vs fewer (fMRI and behavior): Doug, Jim,

others who have analyzed the data

• Behavioral data analyses on the new task: Greg M, Jim

• Image QA on data to date (Greg B? Bryon?)

2:45 – 4 pm• Horse trading as needed--everyone who has tried the protocol needs to know

how long it all takes and what subjects' experiences with it has been; what are our FBIRN priorities and how do we achieve them in this protocol?

How we do it: Today’s Agenda

4:15 New analyses• Wes Thompson, Vince Calhoun

5 pm Statistical analyses in Phase III• The details of modeling, contrasts, covariates, behavioral

levels, etc.

5: 45 Reception at the University Club

6:30 Dinner

RetroIcor presentations

How we do it: Tomorrow

8:30 am Meet here• CMINDS training

• NI WG discussions

• FBIRN cookbook paper discussions

10:30 am• Clinical tablet training

• NI WG discussions

• FBIRN cookbook paper discussions

Noon Meeting End

Spring FBIRN AHM

Available dates at the Beckman:

SIRS: April 9-14

CNS: April 17-20

ISMRM: May 1-7

International Conference on Bioinformatics and Biomedicine: March 29-31