TF-Prioritizer: a Java pipeline to prioritize condition-specific transcription factors.

ABSTRACT:

Background

Eukaryotic gene expression is controlled by cis-regulatory elements (CREs), including promoters and enhancers, which are bound by transcription factors (TFs). Differential expression of TFs and their binding affinity at putative CREs determine tissue- and developmental-specific transcriptional activity. Consolidating genomic datasets can offer further insights into the accessibility of CREs, TF activity, and, thus, gene regulation. However, the integration and analysis of multimodal datasets are hampered by considerable technical challenges. While methods for highlighting differential TF activity from combined chromatin state data (e.g., chromatin immunoprecipitation [ChIP], ATAC, or DNase sequencing) and RNA sequencing data exist, they do not offer convenient usability,

SUBMITTER: Hoffmann M 

PROVIDER: S-EPMC10155229 | biostudies-literature | 2022 Dec

REPOSITORIES: biostudies-literature