NAUTICA: classifying transcription factor interactions by positional and protein-protein interaction information.

ABSTRACT:

Background

Inferring the mechanisms that drive transcriptional regulation is of great interest to biologists. Generally, methods that predict physical interactions between transcription factors (TFs) based on positional information of their binding sites (e.g. chromatin immunoprecipitation followed by sequencing (ChIP-Seq) experiments) cannot distinguish between different kinds of interaction at the same binding spots, such as co-operation and competition.

Results

In this work, we present the Network-Augmented Transcriptional Interaction and Coregulation Analyser (NAUTICA), which employs information from protein-protein interaction (PPI) networks to assign TF-TF interaction candidates to one of three classes: competition, co-operation and non-interactions. NAUTICA filters av

SUBMITTER: Perna S 

PROVIDER: S-EPMC7493360 | biostudies-literature | 2020 Sep

REPOSITORIES: biostudies-literature