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Cool method from Jason Ernst Lab CMImpute to predict DNA methylation across species #rsgdream2023

Thank you to everyone involved in the RSG part of the conference! It is an honor to be able to host #rsgdream2023 at UCLA.

Excited to say my preprint presenting CMImpute, a method to perform cross-species DNA methylation imputation, is out! Jason Ernst Lab biorxiv.org/content/10.110…

This paper, a collaboration with Chongyuan Luo, Jason Ernst, reports that mutations affecting methylation have a greater effect when occurring in higher CpG densities than in lower. cell.com/cell-genomics/…

Identifying associations of de novo noncoding variants with autism through integration of gene expression, sequence and sex information biorxiv.org/cgi/content/sh… #biorxiv_genomic

"The maximal lifespan [of people and 347 mammalian species] is strongly associated with an epigenetic signature that is largely independent of sex, body mass, calorie restriction, or other lifestyle factors" Science Advances science.org/doi/full/10.11… Prof Steve Horvath and colleagues

New ‘Aging Clock’ Predicts the Maximum Lifespan of 348 Mammals Including Humans singularityhub.com/2024/06/07/a-n… via Shay Hub

Delighted to have worked on this perspective on the cis-regulatory code with Julia Zeitlinger (@[email protected]), Jason Ernst Lab, Ferhat Ay, Anthony Mathelier, Alejandra Medina-Rivera, Shaun Mahony, Saurabh Sinha arxiv.org/abs/2411.04363. We provide an overview of current progress and some challenges to think about.

It was great taking part in writing this perspective on the cis-regulatory code with such excellent scientists. ISCB News ISCB RegSys has provided us an outstanding platform to share and discuss these topics over the years. Let's keep up the great work in this fantastic community.

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!

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

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

Happy to share our new paper published today Cell. Thanks to all our coauthors from David Geffen School of Medicine at UCLA, UCLA Semel Institute, 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/…

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

Perspective on recent developments and challenges in regulatory and systems genomics academic.oup.com/bioinformatics… is out, amazing to think about this with Julia Zeitlinger (@[email protected]), Ferhat Ay, Shaun Mahony, Anthony Mathelier, Alejandra Medina-Rivera, Jason Ernst!

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

A new paper "CMImpute: cross-species and tissue imputation of species-level DNA methylation samples across mammalian species" led by Emily Maciejewski building on our lab's mammalian methylation array collaboration with Prof Steve Horvath 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

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…

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