Ke Zhao

The paper develops DeepAnchor, a deep learning model to characterize CTCF binding patterns and predict CTCF-anchored loops across human tissues, revealing sequence and chromatin features that influence loop formation and disease mechanisms.

The paper identifies causal regulatory elements in complex genetic loci using CRISPR perturbations and shows that many causal variants lack classical epigenetic markers.

This paper identifies hub biomarkers and pathways for glaucoma using network medicine approaches and validates them with text-mining and genomic data.

This paper develops regBase, a database of whole genome base-wise aggregations of regulatory variant predictions, and three composite models to score functional, pathogenic, and cancer driver variants, showing superior performance in fine-mapping causal variants.