Major Depressive Disorder (8/7/2009)

Roy Perlis

Holly Sciortino

Patience Gallagher

Isaac Kohane

Susanne Churchill

Vivian Gainer

Griffin Weber

Dan Iosifescu

Shawn Murphy

Sergey Goryachev

Action Items:

Action Item	Description	Owner	Source of Action
1	Ask Lynn if it's possible to query Crimson to see which imaged subjects blood is available for	Roy	8.7.09 Meeting
2	Generate list of useful scans	Dan	8.7.09 Meeting
3	Results of classification (outcome measures)	Tianxi	8.7.09 Meeting
4	Make list about what concepts/covariates are needed to pull out	Dan and Roy	8.7.09 Meeting
5	Move classifier to another workstation	Shawn/Sergey	8.7.09 Meeting
6	Eventually move classifier to I2B2 server	Shawn/Sergey	8.7.09 Meeting
7	Provide instructions for how to get to classifier using remote desktop	Shawn/Sergey	8.7.09 Meeting
8	Talk with Dan Mirel – confirm genotyping costs	Roy	8.7.09 Meeting

Minutes:

·       IMAGING

                                               i.     Non DTI: Healthy volunteers(?): 8 out of 80 usable

1.     total of 20 subjects anticipated

2.     ~ 1 month to complete phenotype data set

                                             ii.     DTI: 170 out of 320 usable

1.     total of 150 subjects (excluding children) anticipated

2.     ~6 months to complete phenotype data set

                                            iii.     5-10% of these will not be useful (but information about cases not included will be kept to reduce bias)

·       Access to DTI data

     

·       Classification

                                               i.     Shi and graduate student are working on using notes to determine outcomes

                                             ii.     Roy and Dan need to create a list of concepts/covariates to pull out of notes

·       A new analyst will be joining the team soon – working under Vivian – but all work still goes through Vivian (She is the point person for DBP and PV)

·       Sergey’s classifier

                                               i.     According to PHS security guidelines, identified data can only be stored on a PHS server

1.     Data can not be open to databases without required approvals

                                             ii.     Short term solution = the classifier is currently only on Sergey’s workstation which can be accessed with remote desktop from a Partners’ computer or with VPN access

1.     Shawn and/or Sergey will also provide instructions for how to get to the classifier using remote desktop

                                            iii.     Long term solution – Shawn plans to integrate the classifier with the i2b2 applications

·       PV

                                               i.     Not much dose-response, but this is without covariates

                                             ii.     Use of multiple antidepressants leads to better signal for most of the poor treatment outcomes

                                            iii.     Roy (and others?) need to sort out how to do analysis

1.     define clinical terms

·       Genetics

   The genotyping is expected to take 6 months (start to finish)

      October 1, 2009 – Target date to cut the link and move samples over (independent of having imaging data available)

Rheumatoid Arthritis

Plenge et al.,

Reviewed the case of the genetic "dark matter", unaccounted for inherited risk.

Discussed use of GRAIL to enrich for SNP's to genotype in validation studies for GWAS.

Discussed prediction based on GWAS data (Plenge to lead).

LJ discussed how to determine if there is a subgroup of patients for which a test provides incremental value.

Major Depressive Disorder

Perlis, Iosifescu et al

Found quite a few more DTI scans suitable for analysis. This will provide more scans than the morphological scans in terms of quality sufficient for the research questions.

Discussed the NLP challenge in light of new technologies developed by Sergei.

Reviewed the current pharmacovigilance results.

Resource Allocation

Discussed allocation of analyst time in light of present and possible funding streams