Genetic Association Information Network (GAIN)

Gain Analysis Workshop II

Agenda and Presentations

October 17-18, 2007

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Wednesday, October 17, 2007
7:00 - 8:30 a.m. Continental Breakfast and Registration Lecture Resources
8:30 - 8:45 a.m. Welcome: Introduction and Agenda Francis Collins
8:45 - 9:15 a.m. Overview: Status of GAIN
  • Data available, presentation/publication plans
  • GAIN 2.0
  • Mental health disorders collaboration


Teri Manolio
David Wholley
Patrick Sullivan
9:15 - 10:30 a.m. GAIN Genotyping
  • Broad genotyping center update
  • Review of genotyping QA pipeline
  • QA process and results to date


Stacey Gabriel
Finny Kuruvilla
Justin Paschall
10:30 a.m. Discussion  
10:45 - 11:15 a.m. Break  
11:15 - 11:45 a.m. GAIN Genotyping (continued)
  • Groups whose genotypes are completed describe their experience with working through
    QC issues


Ben Neale
James Warram
Patrick Sullivan
11:45 a.m. - Noon GAIN Datasets
  • Updating and versioning data releases beyond the initial one


James Ostell
12:00 - 12:30 p.m. Discussion  
12:30 - 1:30 p.m. Lunch  
  Afternoon Session  
1:30 - 2:30 p.m. Imputation
  • IMPUTE Method
  • MACH Method
  • TUNA Method
  • GAIN progress to date


Jonathan Marchini
Gonçalo Abecasis
Dan Nicolae
Itsik Pe'er
2:30 - 3:00 p.m. Bayes Factors
  • Meaning and use
  • Comparison to p-values in GAIN
Jonathan Marchini
3:00 - 3:30 p.m. Discussion  
3:30 - 4:00 p.m. Break  
4:00 - 5:00 p.m. Assessing and analyzing copy number variants in GAIN platforms Steve McCarroll
5:00 - 5:45 p.m. Analysis of and adjustment for population structure Paul de Bakker
Gilles Thomas
5:45 - 6:00 p.m. Discussion  
6:00 p.m. Adjorn  
6:30 p.m. Reception  

Thursday, October 18, 2007
7:00 - 8:00 a.m. Continental Breakfast  
8:00 - 9:00 a.m. GAIN Data Access Experience and Ongoing Issues
  • Brief review of access process, status of distribution, use
  • GAIN human subjects protections: view from external review committees/IOM panel
  • NIH GWAS Policy
Emily Harris
Wylie Burke
Laura Rodríguez
9:00 - 9:15 a.m. Discussion  
9:15 - 10:00 a.m. WTCCC Bipolar Disorder
  • Genotype QC filtering
  • Population structure
  • Initial GWA findings, replication
  • Cross-study analyses
  • Follow-up of initial findings
Nick Craddock
10:00 - 10:15 a.m. Break  
10:15 - 11:00 a.m. FUSION Type II Diabetes
  • Genotype QC filtering
  • Population structure
  • Initial GWA findings, replication
  • Cross-study analyses, including CAD and obesity
  • Follow-up of initial findings
Mike Boehnke
11:00 - 11:45 a.m. Prostate Cancer
  • Genotype QC filtering
  • Population structure
  • Initial GWA findings, replication
  • Cross-study analyses, including breast and colon cancer
  • Follow-up of initial findings
Matthew Freedman
11:45 a.m. - 12:30 p.m. Breast Cancer
  • Genotype QC filtering
  • Population structure
  • Initial GWA findings, replication
  • Cross-study analyses
  • Follow-up of initial findings
Steve Chanock
12:30 - 1:30 p.m. Lunch  
1:30 - 2:15 p.m. Crohn's Disease
  • Genotype QC filtering
  • Population structure
  • Initial GWA findings, replication
  • Cross-study analyses
  • Follow-up of initial findings
Dan Nicolae
2:15 - 3:00 p.m Panel discussion (all five speakers) Moderator:
Francis Collins
3:00 - 3:30 p.m. Conclusion and next steps John Kelsoe
Teri Manolio
3:00 - 3:30 p.m. Adjournment Francis Collins

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Last Updated: November 21, 2010