An Zheng

The paper identifies how non-coding genetic variation affects macrophage responses to IL-4 by analyzing SNP and InDel effects across five inbred mouse strains.

The paper uses deep neural networks to identify context-specific determinants of transcription factor binding affinity and shows improved prediction performance over existing methods.

This paper introduces Tulip, a toolkit for simulating ChIP-seq data to evaluate analyses like peak calling and differential binding, enabling power analysis and benchmarking.