Physical and genetic-interaction density reveals functional organization and informs significance cutoffs in genome-wide screens.

ABSTRACT: Genome-wide experiments often measure quantitative differences between treated and untreated cells to identify affected strains. For these studies, statistical models are typically used to determine significance cutoffs. We developed a method termed "CLIK" (Cutoff Linked to Interaction Knowledge) that overlays biological knowledge from the interactome on screen results to derive a cutoff. The method takes advantage of the fact that groups of functionally related interacting genes often respond similarly to experimental conditions and, thus, cluster in a ranked list of screen results. We applied CLIK analysis to five screens of the yeast gene disruption library and found that it defined a significance cutoff that differed from traditional statistics. Importantly, verification experiments re

SUBMITTER: Dittmar JC 

PROVIDER: S-EPMC3645594 | biostudies-literature | 2013 Apr

REPOSITORIES: biostudies-literature