Identification of regulatory modules in genome scale transcription regulatory networks.

ABSTRACT:

Background

In gene regulatory networks, transcription factors often function as co-regulators to synergistically induce or inhibit expression of their target genes. However, most existing module-finding algorithms can only identify densely connected genes but not co-regulators in regulatory networks.

Methods

We have developed a new computational method, CoReg, to identify transcription co-regulators in large-scale regulatory networks. CoReg calculates gene similarities based on number of common neighbors of any two genes. Using simulated and real networks, we compared the performance of different similarity indices and existing module-finding algorithms and we found CoReg outperforms other published methods in identifying co-regulatory genes. We applied CoReg to a large-scal

SUBMITTER: Song Q 

PROVIDER: S-EPMC5732458 | biostudies-literature | 2017 Dec

REPOSITORIES: biostudies-literature