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The term "epigenome" refers to the collection of chemical modifications to the DNA and chromatin in the nucleus of a cell, which profoundly influence the functional output of the genome. Epigenome research can provide novel insights into many long-standing questions pertaining to gene regulation and genome function and has the potential to significantly improve our knowledge of human biology and disease.

Our Science

Epigenomics can provide novel insights into many long-standing questions about gene regulation and genome function and can significantly improve our understanding of human biology and disease. Together, this knowledge can lead to breakthrough diagnostic and therapeutic opportunities.

Our mission is to make transformative discoveries which advance science and human health, by applying cutting-edge epigenomic technologies to critical research questions. Learn more...

Our Technology

To make the transformative discoveries that bring us closer to understanding the epigenome in each cell, disease, and individual - we employ state-of-the-art automated platforms for high-throughput epigenomics and single-cell genomics. These platforms enable comprehensive investigation into diverse aspects of the epigenome - and ensure accuracy, reproducibility, and scalability when making these important discoveries. Learn more...


A core part of our mission is to unlock the transformative potential of epigenomics through collaboration. Collaborations with academic and industry partners have the potential to transform our knowledge of the human genome, and to change the paradigm of how we diagnose and treat disease. Learn more...


09/24/21. San Diego Chromatin Club.  We were fortunate to hear a wonderful computational analysis talk, "Deciphering Gene Expression Programs using Single-cell Multi-omics and Deep Learning," from Dr. Stein Aerts, University of Leuven.  Check it out! 

09/10/21. San Diego Chromatin Club.  It was quite a pleasure to hear of the exciting discoveries of Dr. Lluis Morey, University of Miami Miller School of Medicine, in a talk entitled, "Role of Polycomb and CoREST complexes in breast cancer." 

08/27/21. San Diego Chromatin Club.  Dr. Peter Adams, Sanford Burnham Prebys Medical Discovery Institute, shared his research in an enjoyable talk. 

08/13/21. San Diego Chromatin Club.  Thank you, Dr. Benjamin Delatte from our industry sponsor Active Motif, for sharing the exciting developments at Active Motif!

07/23/21. San Diego Chromatin Club.  We were treated to a riveting overview of genome architecture from Dr. B. Franklin Pugh, Cornell University. 

07/14/21. San Diego Chromatin Club.  We came back from summer break with an exciting seminar from Dr. Yodai Takei, California Institute of Technology, Dr. Long Cai's laboratory.

05/21/21. San Diego Chromatin Club.  We were fortunate to hear a double feature talks with Dr. Sascha Duttke, UCSD Christopher Benner Group, and Owen Chapman, UCSD Chavez and Mesirov Labs, before our short summer break.

05/19/21. Center Highlights.  We are happy to announce one more publication this month from Center collaborations, Interpreting type 1 diabetes risk with genetics and single-cell epigenomics in Nature. Check it out!

05/17/21. Center Highlights.  Our latest publication has been released today in Nature GeneticsCTCF mediates dosage- and sequence-context-dependent transcriptional insulation by forming local chromatin domains, which highlights significant collaborative work from the Functional and Spatial Genomics part of the Center. Check it out!

05/14/21. Center Highlights.  We are excited to share this publication in Science Advances, Cardiac cell type–specific gene regulatory programs and disease risk association. Check it out!

04/01/21. Center Highlights.  We are pleased to highlight another 2021 publication in Nature Genetics, Single-cell chromatin accessibility identifies pancreatic islet cell type– and state-specific regulatory programs of diabetes risk.

02/17/21. Center Highlights.  Check out our first pre-print of 2021, A cell atlas of chromatin accessibility across 25 adult human tissues

12/21/20. Center Highlights.  UCSD's tumblr, News of UC San Diego Health Sciences, has featured our SARS-CoV2 publication in a new blog, A Detailed Look at How SARS-CoV2 Interacts with Lung Cells. Check it out! 

11/09/20. Center Highlights.  We are proud to share our pre-print is now in press in eLife, Single cell multiomic profiling of human lung reveals cell type-specific and age-dynamic control of SARS-CoV2 host genes. Check it out! 

10/12/20. Center Highlights. Read insights from 4D Nucleosome participants – including our director Dr. Bing Ren – in this Knowable Magazine article, The blueprint for life, neatly folded, which focuses on the efforts and goals of the 4D Nucleosome program. Check it out!

9/23/20. Center Highlights. Our director Dr. Bing Ren, Center members, and our Functional and Spatial platform were recently mentioned in PNAS in the article Inner Workings: Researchers peek into chromosomes’ 3D structure in unprecedented detail. Check it out! 

9/12/20. Center Research. Our newest preprint, Cardiac Cell Type-Specific Gene Regulatory Programs and Disease Risk Association is on bioRxiv now!

7/09/20. Center Research. Our newest preprint, CTCF Mediates Dosage and Sequence-context-dependent Transcriptional Insulation through Formation of Local Chromatin Domains is on bioRxiv now!

5/19/20. Center Research. Our newest preprints, An Atlas of Gene Regulatory Elements in Adult Mouse Cerebrum and Single nucleus multiomic profiling reveals age-dynamic regulation of host genes associated with SARS-CoV-2 infection are on bioRxiv now!


9500 Gilman Drive
MC 0767 
La Jolla, California 92093 -0653

Room #1056-8 (Offices)
Room #1087-88 (Lab)


Phone: 858-246-2650
Twitter: @CEpigenomics