Chunquan Li

TransAgent automates transcriptional regulation analysis by integrating multi-omics data and tools, improving efficiency and uncovering biological insights in cancer and differentiation studies.

This paper identifies LINC00094 as a long non-coding RNA that forms a core regulatory circuitry with TCF3 and KLF5 to regulate lipid metabolism-related genes in esophageal squamous cell carcinoma.

TRAPT predicts transcriptional regulators by integrating multi-omics epigenomic data, outperforming existing methods in identifying co-factors and chromatin regulators.

The paper develops universal epigenetic clocks that accurately estimate age across mammalian tissues using DNA methylation data from 185 species.

SENIES is a deep learning predictor that identifies enhancers and their strength by integrating DNA shape features with sequence-derived features.

OpenAnnotate provides a web server for efficiently annotating chromatin accessibility of genomic regions across biosamples, tissues, and systems.