Using high-throughput multi-omics data to investigate structural balance in elementary gene regulatory network motifs.

ABSTRACT:

Motivation

The simultaneous availability of ATAC-seq and RNA-seq experiments allows to obtain a more in-depth knowledge on the regulatory mechanisms occurring in gene regulatory networks. In this article, we highlight and analyze two novel aspects that leverage on the possibility of pairing RNA-seq and ATAC-seq data. Namely we investigate the causality of the relationships between transcription factors, chromatin and target genes and the internal consistency between the two omics, here measured in terms of structural balance in the sample correlations along elementary length-3 cycles.

Results

We propose a framework that uses the a priori knowledge on the data to infer elementary causal regulatory motifs (namely chains and forks) in the network. It is based on the notions of

SUBMITTER: Zenere A 

PROVIDER: S-EPMC8696094 | biostudies-literature | 2021 Dec

REPOSITORIES: biostudies-literature