Jason Ernst Lab

Submissions are now open for a Genome Biology special collection on "Prioritizing non-coding variants" that I am a guest editor of with Martha Bulyk and Katie Pollard. Link for more information: link.springer.com/collections/hf… deadline: November 25, 2026.

Learning a pairwise epigenomic and transcription factor binding association score across the human genome academic.oup.com/bioinformatics…

MissenseHMM: state-based annotations for missense variants through joint modeling of pathogenicity scores biorxiv.org/content/10.648… #biorxiv_genomic

We are excited to release a single-cell and spatial 3D epigenomic atlas of developing human basal ganglia and inhibitory neurons, part of our BICAN effort in collaboration with @lab_paredes @jernst98 @emukamel @CEpigenomics @bpasaniuc biorxiv.org/content/10.648…

Thanks to @ferhatay and Aly Khan, we’re excited to announce a new chapter for RECOMB-RSG 2026. After years with ISCB/DREAM, we are transitioning to an official RECOMB satellite meeting (May 25 in Thessaloniki). recomb-rsg.github.io

We like to introduce map3C, developed by Joseph Galasso, that drastically improves the mapping and contact calling performance of snm3C-seq and now enables accurate 3D genome modeling. map3C was developed in collaboration with @jernst98 and Frank Alber biorxiv.org/content/10.110…

📣New from Li et al! 📄Whole genome sequence-based association analysis of African American individuals with bipolar disorder and schizophrenia 👉bit.ly/4lWks1M

GECSI: Large-scale chromatin state imputation from gene expression biorxiv.org/content/10.110… #biorxiv_bioinfo

Genome-wide identification and analysis of recurring patterns of epigenetic variation across individuals: Communications Biology, Published online: 07 June 2025; doi:10.1038/s42003-025-08179-5Recurring genome-wide patterns of epigenetic mark variation… nature.com/articles/s4200…

A new paper: "Genome-wide identification and analysis of recurring patterns of epigenetic variation across individuals" led by Jennifer Zou and @eamaciejewski is now published. nature.com/articles/s4200…

A new paper: "Identifying associations of de novo noncoding variants with autism through integration of gene expression, sequence, and sex information" led by Luke Li is now published genomebiology.biomedcentral.com/articles/10.11…

Will comparative biology crack the epigenetic code to longevity? New imputed DNA methylation dataset covers 59 tissues from 348 mammals including long living species such as bowhead whale (211 years), bats, and the naked mole rat. Which tissue holds the key to longevity? Which genes, CpGs, and genomic regions? Cutting-edge imputation applied to data from the Mammalian Methylation Consortium. Emily Maciejewski, Jason Ernst (2025) CMImpute: cross-species and tissue imputation of species-level DNA methylation samples across mammalian species. Genome Biology. pmc.ncbi.nlm.nih.gov/articles/PMC12… @JasonErnstLab @eamaciejewski #epigenetics #compbio #longevity

A new paper "CMImpute: cross-species and tissue imputation of species-level DNA methylation samples across mammalian species" led by @eamaciejewski building on our lab's mammalian methylation array collaboration with @prof_horvath is now published genomebiology.biomedcentral.com/articles/10.11…

A new paper "ChromActivity: integrative epigenomic and functional characterization assay based annotation of regulatory activity across diverse human cell types" led by @tevzilla is now published. genomebiology.biomedcentral.com/articles/10.11…

Perspective on recent developments and challenges in regulatory and systems genomics academic.oup.com/bioinformatics… is out, amazing to think about this with @JuliaZeitlinger, @ferhatay, @mahonylab, @AMathelier, @AleMedinaRivera, @jernst98!

Here is a press release by ⁦@UCLAHealth⁩ that nicely summarizes the key findings from our paper published today ⁦@CellCellPress⁩. uclahealth.org/news/release/m…

Happy to share our new paper published today @CellCellPress. Thanks to all our coauthors from @dgsomucla, @UCLASemel, and CHDI. Distinct mismatch-repair complex genes set neuronal CAG-repeat expansion rate to drive selective pathogenesis in HD mice: Cell cell.com/cell/fulltext/…

Learning a Pairwise Epigenomic and Transcription Factor Binding Association Score Across the Human Genome biorxiv.org/cgi/content/sh… #biorxiv_bioinfo

Faculty Position in UCLA’s School of Medicine: Broad search in Biomathematics, Biochemistry, Genetics, Pharmacology, Neurobiology, Physiology, Microbiology, Immunology. We seek exceptional scientists committed to research and mentorship. Apply by Jan 19 recruit.apo.ucla.edu/JPF10062

After many zoom meetings, discussions & learning from one another about different ways to look at the same data/problem, our perspective article on regulatory genomics is out. We have a “hallmarks of gene regulation” figure which i am planning to use in my talks. Enjoy reading!