Epigenetics Update - MethAgingDB: a comprehensive DNA methylation database for aging biology go.nature.com/4ltmg2T

Haixin Wang and Shengquan Chen reporting in Scientific Data

#Epigenetics #DNAm #DNAme #Aging
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Empower your research with high-res epigenetic insights at epigenometech.com

Delighted & excited to share our latest preprint on non-canonical enhancers in human pluripotent stem cells, the result of a fantastic and fun collaboration with @guenesdoganlab.bsky.social‬:
www.biorxiv.org/content/10.1...

🧵 below

Gene regulation involves thousands of proteins that bind DNA, yet comprehensively mapping these is challenging. Our paper in Nature Genetics describes ChIP-DIP, a method for genome-wide mapping of hundreds of DNA-protein interactions in a single experiment.
www.nature.com/articles/s41...

How long does an mRNA stay in the nucleus? How long does it stay in the cytoplasm? In an amazing collaboration with @landthalerm.bsky.social, we used metabolic labeling, cell fractionation and mathematical modeling to quantify mRNA flow through the cell. Finally out in MSB: doi.org/10.1038/s443...

I created a simple flow chart to help my lab trainees choose the most appropriate stats test in Prism (*for single-factor comparisons only). Feel free to share with your group if you think it could be helpful first start.

cBAF generates subnucleosomes that expand OCT4 binding and function beyond DNA motifs at enhancers.

www.nature.com/articles/s41...

Our recent study in Cell Metabolism provides compelling evidence that chromatin accessibility and transcription factor network remodeling in aging reflect the predictable degrading effects of a mechanism initially driving organismal maturation.
Link: doi.org/10.1016/j.cmet.2024.06.006
Thread 🧵👇1/9

A few years old, but worth a read (perhaps in particular to those who do ML in BIO or take biological databases for granted) 🧪🧬🖥️

"How Margaret Dayhoff Brought Modern Computing to Biology"

www.smithsonianmag.com/science-natu...

Leonid Mirny and I wrote this for all interested in chromosomes: "The chromosome folding problem and how cells solve it"

www.cell.com/action/showP...

I’ve just read this pre-print and it’s fantastic. A conserved element with no endogenous enhancer activity is nonetheless necessary and sufficient for extreme long range enhancer action. Recommend to anyone interested in gene regulation

Regulation of transcription by condensates, great review by @bsabari.bsky.social and coll.

www.nature.com/articles/s41...

Created one! Let me know if you find anyone that is missing.
go.bsky.app/StHb8Ma

Hi folks on Bluesky! I'm a postdoc at Harvard Medical School, studying epigenomics underlying aging. Specifically, I am trying to understand the spatiotemporal dynamics of partial reprogramming by three of four Yamanaka factors (OSK). Happy to be here!

ok, I tried to make a starter pack on genome stability/DNA replication/DNA repair etc. Sorry if I couldn't find someone, please nominate yourself and your colleagues in comments or DMs, looking forward to connecting with everyone!
go.bsky.app/9jdDNxG

Hi BlueSky! It's great to be here. Here's a handy Starter Pack of DNA repair & genome stability groups that I found so far go.bsky.app/NvFWKvL

Hi Bluesky! I made a 3D chromatin starter pack.
Let me know if you would like to be added.
go.bsky.app/6tTQdqQ