Bias tradeoffs in the creation and analysis of protein-protein interaction networks.

ABSTRACT: Networks constructed from aggregated protein-protein interaction data are commonplace in biology. But the studies these data are derived from were conducted with their own hypotheses and foci. Focusing on data from budding yeast present in BioGRID, we determine that many of the downstream signals present in network data are significantly impacted by biases in the original data. We determine the degree to which selection bias in favor of biologically interesting bait proteins goes down with study size, while we also find that promiscuity in prey contributes more substantially in larger studies. We analyze interaction studies over time with respect to data in the Gene Ontology and find that reproducibly observed interactions are less likely to favor multifunctional proteins. We find that str

SUBMITTER: Gillis J 

PROVIDER: S-EPMC3972268 | biostudies-literature | 2014 Apr

REPOSITORIES: biostudies-literature