PPIXpress and PPICompare webservers infer condition-specific and differential PPI networks.

ABSTRACT:

Summary

We present PPIXpress and PPICompare as two webservers that enable analysis of protein-protein interaction networks (PPINs). Given a reference PPIN and user-uploaded expression data from one or multiple samples, PPIXpress constructs context-dependent PPINs based on major transcripts and high-confidence domain interactions data. To derive a differential PPIN that distinguishes two groups of contextualized PPINs, PPICompare identifies statistically significant altered interactions between multiple context-dependent PPINs from PPIXpress. We present a case study where PPIXpress and PPICompare webservers were used in combination to construct the PPINs specific for melanocytic nevi and primary melanoma cells, and to detect the rewired protein interactions between these two sample

SUBMITTER: Do HTT 

PROVIDER: S-EPMC11845280 | biostudies-literature | 2025

REPOSITORIES: biostudies-literature