Katherine Decker

The paper constructs a transcriptional regulatory network for Escherichia coli using machine learning on a large RNA-seq compendium, identifying regulatory modules and novel regulons.

The paper identifies regulons of five two-component systems in E. coli using RNA-seq and ChIP-exo data, revealing novel regulatory relationships and non-cognate inducers.

iModulonDB provides a knowledgebase of microbial transcriptional regulation derived from machine learning, offering curated gene sets and their activity levels across three bacterial species.