MORA and EnsembleTFpredictor: An ensemble approach to reveal functional transcription factor regulatory networks.

ABSTRACT:

Motivation

Our study aimed to identify biologically relevant transcription factors (TFs) that control the expression of a set of co-expressed or co-regulated genes.

Results

We developed a fully automated pipeline, Motif Over Representation Analysis (MORA), to detect enrichment of known TF binding motifs in any query sequences. MORA performed better than or comparable to five other TF-prediction tools as evaluated using hundreds of differentially expressed gene sets and ChIP-seq datasets derived from known TFs. Additionally, we developed EnsembleTFpredictor to harness the power of multiple TF-prediction tools to provide a list of functional TFs ranked by prediction confidence. When applied to the test datasets, EnsembleTFpredictor not only identified the target TF but also re

SUBMITTER: Boyer K 

PROVIDER: S-EPMC10688744 | biostudies-literature | 2023

REPOSITORIES: biostudies-literature