Predicting direct protein interactions from affinity purification mass spectrometry data.

ABSTRACT:

Background

Affinity purification followed by mass spectrometry identification (AP-MS) is an increasingly popular approach to observe protein-protein interactions (PPI) in vivo. One drawback of AP-MS, however, is that it is prone to detecting indirect interactions mixed with direct physical interactions. Therefore, the ability to distinguish direct interactions from indirect ones is of much interest.

Results

We first propose a simple probabilistic model for the interactions captured by AP-MS experiments, under which the problem of separating direct interactions from indirect ones is formulated. Then, given idealized quantitative AP-MS data, we study the problem of identifying the most likely set of direct interactions that produced the observed data. We address this challengi

SUBMITTER: Kim ED 

PROVIDER: S-EPMC2991326 | biostudies-literature | 2010 Oct

REPOSITORIES: biostudies-literature