Functional genomics

A practical way to prioritize transcription factors by combining motif enrichment, expression, chromatin accessibility, timing and network position.

How to get more biological information from ATAC-seq by looking at fragments, nucleosomes, TSS profiles, footprints and genomic signal.

A reusable strategy for extracting dynamic programs from time-course transcriptomic data with splines, clustering and module-level interpretation.

Developing ATAC-seq beyond chromatin accessibility into an all-in-one assay for genetic, epigenetic and aging-related signatures.

Dissecting how p53-associated metabolic programs, pyruvate metabolism and acetyl-CoA production shape chromatin states and stabilize senescence during aging.

Time-resolved multi-omic analyses of senescence to identify regulatory hierarchies, chromatin transitions and vulnerabilities in aging and cancer.

A stringent DNA/RNA-seq framework to distinguish genuine RNA editing events from sequencing, mapping and biological noise.

Combining linkage mapping, whole-genome sequencing, selection signatures and expression QTLs to prioritize causal genes for complex traits.