Monday, May 31, 2010

MDD

Minutes (courtesy Patience Gallagher)

Minutes:

  • PV
    • Reminder of the original concept:
      • Group patients on SSRIs into 3 groups based on whether their medication had a high, medium or low affinity for the serotonin transporter - determine if there is a dose response for bleeding events
        • Use this design instead of a case-control
        • Decided against self-matched analysis because that approach is best when the exposure is intermittent and has immediate, transient effects
      • Doing this study is important, as there is limited data available in the literature, but the prior is high (Smoller et al., 2009, Archives of Internal Medicine)
      • Outcome of interest: Bleeds (e.g. stroke, GI bleeds)
    • Vivian, Roy and Victor have worked on various iterations of the same general idea – the group needs to decide on final approach.
    • The Plan:
      • Use a test of proportions (Zak has a reference for this that he can distribute)
        • (This approach is kind of like a Chi Square)
      • Use only patients on monotherapy
        • We are not looking at dose of medication, just where the prescription falls on the affinity spectrum, which will be divided into three groups (high, medium and low affinity)
      • Start with a patient’s first exposure to AD (not first event) à look forward 6 months. If event doesn’t happen in those six months, restart the clock.
        • Although six months is the primary window of time, a sensitivity analysis of 30 days will also be done.
      • If a patient switches categories (goes from high to medium affinity drug) they are censored. However, if a patient switches from one drug to another within the same affinity category, they stay in the analysis.
      • As a control, we’ll look at patients with: MI, DVT, prostate cancer, colon cancer, asthma, and breast cancer (?)
      • The 3 groups (high, medium and low affinity) will be compared on visit intensity, age, gender
        • As long as visit intensity isn’t associated with just one of the categories of affinities, it should not be a confounder.
    • Victor has written most of the code needed for these analyses, so he will incorporate the ideas discussed today and bring the results to the meeting next week.
    • Additional issues to consider:
      • Using another psychotropic comparator as a negative control would be good, but difficult to do.
      • Look at depression response (do patients actually get better while on AD?)
      • Collaboration with the Stroke Service at MGH (Dr. Furie) – They are interested in collaborating – Roy will follow up with them.
        • They have a comprehensive stroke database (that includes imaging data) that could be incredibly useful for the PV component – And reciprocally, our AD exposure info/algorithms would be beneficial to them.
        • Protocol will need to be amended to incorporate their data in our analyses

Friday, May 7, 2010

Rheumatoid Arthritis

Cai, Kohane, Szolovits, Murphy, Goryachev, Savova, Churchill, Karlson, Plenge

Reviewed different NLP strategies for smoking (a crucial exposure risk for RA).

Discussed SNP validation manuscript.

Technology updates

Kohane, Murphy, Weber, Churchill, Wilson. Mendis

Reviewed plugin architecture and convergence between web and Java client.

Reviewed "normals" project.

Friday, April 30, 2010

Crimson Cell

Wilson, Bry, Murphy, Kohane, Churchill

Discussed progress on the Cell. Includes support for approved protocols and specimen details.

Friday, April 9, 2010

Rheumatoid Arthritis

Beth Karlson provided an overall review of RA epidemiology so as to compare to our i2b2 work. Among the interesting facts I learned: In the Nurse's Health Study only 6% of the self-reported cases of RA were validated by the expert reviewers. Described relative risk of smoking with regard to RA is approximately 1.4 and is an effect that take appears to only taper off with about 20 years of smoking cessation.

Mission Hill Projects, Apr 9, 2010

Planning for hands on i2b2 tutorial for AMIA NOW

Mendis, Wilson, Savova, Weber, Kohane, Churchill,

Discussed the content for a hands on tutorial for the upcoming AMIA NOW.

Friday, April 2, 2010

New members of the i2b2 team

Brian Wilson (bioinformatics and statistical genetics) and Guergana Savova (natural language processing) both from the Mayo Institute have just joined the i2b2 team. Welcome to both!

Guergana Savova and Brian Wilson