Characterizing protein interactions employing a genome-wide siRNA cellular phenotyping screen.

ABSTRACT: Characterizing the activating and inhibiting effect of protein-protein interactions (PPI) is fundamental to gain insight into the complex signaling system of a human cell. A plethora of methods has been suggested to infer PPI from data on a large scale, but none of them is able to characterize the effect of this interaction. Here, we present a novel computational development that employs mitotic phenotypes of a genome-wide RNAi knockdown screen and enables identifying the activating and inhibiting effects of PPIs. Exemplarily, we applied our technique to a knockdown screen of HeLa cells cultivated at standard conditions. Using a machine learning approach, we obtained high accuracy (82% AUC of the receiver operating characteristics) by cross-validation using 6,870 known activating and inhib

SUBMITTER: Suratanee A 

PROVIDER: S-EPMC4178005 | biostudies-literature | 2014 Sep

REPOSITORIES: biostudies-literature