Leena A Hilakivi-Clarke

Isoflavones impair response to anti-PD1 therapy in murine breast cancer models, irrespective of dietary fiber and fecal short chain fatty acid levels

This study shows that isoflavones in the diet impair anti-PD1 therapy response in breast cancer models, regardless of dietary fiber or SCFA levels, and that ER blockade can restore responsiveness.

ChIP-BIT2: a software tool to detect weak binding events using a Bayesian integration approach

ChIP-BIT2 detects weak transcription factor binding events by integrating ChIP-seq sample and input data using a Bayesian approach.

Inferring active cis-regulatory modules to predict functional regulatory elements

The paper develops ChIP-GSM, a Bayesian method to infer cis-regulatory modules from ChIP-seq data, showing improved performance in predicting regulatory element activity.

BICORN: An R package for integrative inference of de novo cis-regulatory modules

BICORN integrates transcription factor binding and gene expression data to infer sparse cis-regulatory modules and their regulatory networks.