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Presentations from the meeting

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Milestones for the meeting

  • Hierarchy finalized and data in
  • Mark up of data bases done
  • Mediator-functioning system
  • Better MBAT Atlasing surfaces: near term is to generate surfaces, smooth and section them to have contours built on current MRI delineations (perfect match)
  • Integration of Maryann’s Common specimen delineations into MBAT
  • MRI and Paxinos delineations better registered
  • Registration across atlasing efforts (Drexel, UCSD, UCLA)
  • Alignment of different data sets from Common specimen study

REGISTER for the 2006 Mouse BIRN All Hands Meeting

Need to share rides to the Airport or get suggestions about the best hotels or restaurants? Go here to post comments about logistics for the meeting

This meeting will be held at UCLA

    • Mouse BIRN meeting May 30-31 held on the Covel Commons Grand Horizons Salon A (see map below)
    • MBAT programmers meeting June 1-2 (afternoon)
      • Thursday in NRB room 470 (same building as LONI)
      • Friday in the DIVE of LONI (see map below)
    • Ontology working group meeting June 1 held in NRB room 468 (same building as LONI-see map below)
    • Map of campus, meeting locations, and area hotels
    • Attendees are responsible for parking fees and alcohol at Tuesday night's dinner
    • PARKING: ALL need to stop at the Parking Kiosk (see map), tell them you are going to the mouse BIRN meeting and you are to park in PSV. They will give you the proper parking permits.

Schedule as of 16 Feb 2006

  • modified April 10, 2006
  • modified April 28, 2006
  • modified May 19, 2006

May 30, 2006
8:30 AM-9:00 AM BREAKFAST
9:00 AM-10:00 AM What we did, what we will do Arthur Toga
Yoni Nissanov
G. Al Johnson
Russ Jacobs
Mark Ellisman
Research Models Progress/Background
10:00 AM-10:20 AM Parkinson's (a-syn) Diana Price
10:20 AM-10:40 AM Multiple Sclerosis (EAE) Allan Mackenzie-Graham
10:40 AM-10:50 AM BREAK
10:50 AM-11:10 AM Alzheimer's (APP) Joanna Jankowsky
11:10 AM-11:30 AM Genetic Reference Population (GRP) Rob Williams
Use cases for data integration into mouse BIRN infrastructure (overview)
11:30 AM-12:00 AM Microarray/expression data Daniel Sforza
12:00 AM-12:30 PM Cell volumes Maryann Martone
12:30 PM-1:15 PM Lunch
1:15 PM-1:45 PM 2D slice to 2D slices/atlases Maryann Martone
1:45 PM-2:15 PM mapping 2D slices to 3D atlases Erh-Fang Lee
2:15 PM-2:45 PM MRI volume, prenatal Seth Ruffins
2:45 PM-3:15 PM MRI protocol G. Al Johnson
3:15 PM-3:30 PM BREAK
3:30 PM-4:00 PM 2.5D alignment of histology to atlas Yoni Nissanov
4:00 PM-4:30 PM Atlas delineations, nomenclatures, and hierarchies Allan Mackenzie-Graham
4:30 PM-4:50 PM Wrap up of data integration user needs/priorities
4:50 PM-5:00 PM BREAK
5:00 PM-6:00 PM Speaker Jingyang Zhang: "Diffusion Tensor Imaging of Mouse Brains"
7:00 PM-9:00 PM DINNER: Napa Valley Grille

May 31, 2006
8:30 AM-9:00 AM BREAKFAST
Finding and getting data and information out of the BIRN
8:45 AM-10:15 AM Collaborative Data Processing and Workflow session Jeff Grethe
10:15 AM-10:45 AM Ontology report and overview Maryann Martone
10:45 AM-11:00 AM BREAK
11:00 AM-11:30 AM Mediator tutorial and working session Vadim Astakov
11:30 AM-12:00 PM BIRN CC tools tutorial and working session Jeff Grethe
12:00 PM-12:45 PM Lunch
Tool Integration Session
12:45 PM-2:15 PM MBAT CCDB query tool demo for feedback and extension David Shattuck
MBAT Expression query interface demo for feedback and extension Daniel Sforza
Integration into MBAT: IH/Gene expression, Histogram/ROI queries, 2D to 2D registration Maryann Martone
NeuroTerrain SDK integration into MBAT Bill Bug
Working Sessions-Identification of priorities and Action Items
2:15 PM-3:00 PM Atlasing WG Ilya Zaslavsky
Database WG Maryann Martone
Review of Action Items and Timelines
3:00 PM-3:45 PM Mouse Models:
Parkinson's (a-syn) Diana Price
Multiple Sclerosis (EAE) Allan Mackenzie-Graham
Alzheimer's (APP) ?
Genetic Reference Population (GRP) Rob Williams
3:45 PM-4:00 PM Workging Groups:
Data Federation Maryann Martone
Atlasing Tools Ilya Zaslavsky



June 1, 2006
9:00-12:30 Ontology cross-test bed working session NRB 468
1:30-5:00 LONI DIVE
9:00-5:00 MBAT programmers working session NRB 470

Morning of June 2, 2006
MBAT programmers working session DIVE