Let us know if you have published using ChIPseeker and your publication will be featured here.


Find out more on google scholar.


Maintenance of macrophage transcriptional programs and intestinal homeostasis by epigenetic reader SP140. Science Immunology. 2017, 2(9):eaag3160

Identification of quiescent and spatially restricted mammary stem cells that are hormone responsive. Nature Cell Biology. 2017.


Dpy30 is critical for maintaining the identity and function of adult hematopoietic stem cells. The Journal of Experimental Medicine. 2016.

Combining ATAC-seq with nuclei sorting for discovery of cis-regulatory regions in plant genomes. Necleic Acids Research. 2016

Satb2 determines miRNA expression and long-term memory in the adult central nervous system. eLife. 2016, 5:e17361

m6A modulates neuronal functions and sex determination in Drosophila. Nature. 2016, 540:242–247.

Regulation of transcriptional elongation in pluripotency and cell differentiation by the PHD-finger protein Phf5a. Nature Cell Biology. 2016, 18(11):1127–1138

Comprehensive genome and epigenome characterization of CHO cells in response to evolutionary pressures and over time. Biotechnology and Bioengineering. 2016, 113(10):2241-2253.

A comprehensive comparison of tools for differential ChIP-seq analysis. Briefings in Bioinformatics. 2016, 17(6): 953-966.

metagene Profiles Analyses Reveal Regulatory Element’s Factor-Specific Recruitment Patterns. PLoS Comput Biol. 2016, 12(8): e1004751.

Mouse MORC3 is a GHKL ATPase that localizes to H3K4me3 marked chromatin. PNAS Aug, 2016

TCGA Workflow: Analyze cancer genomics and epigenomics data using Bioconductor packages. F1000Research. 2016, 5:1542.

Cistrome-based Cooperation between Airway Epithelial Glucocorticoid Receptor and NF-κB Orchestrates Anti-inflammatory Effects. The Journal of Biological Chemistry 2016, 291:12673-12687.

Obesity and Bariatric Surgery Drive Epigenetic Variation of Spermatozoa in Humans. Cell Metabolism 2016, 23(2):369-378.

ReactomePA: an R/Bioconductor package for reactome pathway analysis and visualization. Molecular BioSystems. 2016, 12(2):477-479.


Elf5-centered transcription factor hub controls trophoblast stem cell self-renewal and differentiation through stoichiometry-sensitive shifts in target gene networks. Genes & Development 2015, 29:2435-2448.

Response Element Composition Governs Correlations between Binding Site Affinity and Transcription in Glucocorticoid Receptor Feed-forward Loops. The Journal of Biological Chemistry 2015, 290:19756-19769.

Common binding by redundant group B Sox proteins is evolutionarily conserved in Drosophila. BMC Genomics 2015, 16:292.