Carmen-Proteomics

Tuesday, March 21, 2017

Preliminary results of GSEA runs by Amanda Larracuente (Qiu Lab)

• Methods

1. Rank identified proteins by t-statistics, which is a measure of difference between WT and KO mice (3 individuals each). Most genes don't change, with t close to zero. t << 0 suggests down-regulation in KO mice relative to WT mice, and t >> 0 suggests up-regulation. (Need to make sure of the sign)
2. Download mice gene sets from a web resource
3. Run GSEA by Broad Institute

• http://diverge.hunter.cuny.edu/~weigang/carmen-proteomics/mice.GseaPreranked.1490136739893
• Results using mice gene set w/o GO annotations