combined ATACseq and RNAseq analysis to improve inference of TF regulatory modes
Title: combined ATACseq and RNAseq analysis to improve inference of TF regulatory modes
SNIC Project: SNIC 2020/13-44
Project Type: SNIC Small Compute
Principal Investigator: Alberto Zenere <alberto.zenere@liu.se>
Affiliation: Linköpings universitet
Duration: 2020-05-29 – 2021-06-01
Classification: 10203
Keywords:

Abstract

Inferring GRNs has proven to be a difficult task for several reasons. Whereas some TFs act as on/off switches, others exhibit a dosage-dependent regulation on the target gene (add references). It is also often the case that a target gene transcription is controlled by the interplay of several TFs, involving non-linear multivariate models. In this study we leverage the interdependency that exists between the regulation of TF activity and chromatin remodeling in order to predict TFs regulatory mode. It is shown that chromatin time-series add independent information from mRNA measurements and improves the accuracy of the predictions.