A multi-tool recipe to identify regions of protein-DNA binding and their influence on associated gene expression.

ABSTRACT: One commonly performed bioinformatics task is to infer functional regulation of transcription factors by observing differential expression under a knockout, and integrating DNA binding information of that transcription factor.   However, until now, this task has required dedicated bioinformatics support to perform the necessary data integration. GenomeSpace provides a protocol, or "recipe", and a user interface with inter-operating software tools to identify protein occupancies along the genome from a ChIP-seq experiment and associated differentially regulated genes from a RNA-Seq experiment. By integrating RNA-Seq and ChIP-seq analyses, a user is easily able to associate differing expression phenotypes with changing epigenetic landscapes.

SUBMITTER: Carlin D 

PROVIDER: S-EPMC5806050 | biostudies-literature | 2017

REPOSITORIES: biostudies-literature