❗️Excited to share our latest work published in @NatureSMB We profiled 3D enhancer networks in early developmental cell lines and created 3D-HiChAT to nominate functional enhancer-promoter contacts. nature.com/articles/s41594-0… ❗️
@efapostolou29 @AlexPPolyzos @SalataAda @artsinyc
Happy to share our new preprint, @efapostolou29 lab! We mapped 3D Enhancer-Promoter connections in mouse TSC, ESC and XEN Cells, and created a machine-learning model, 3D-HiChAT, that uses 1D and 3D features to predict gene expression, validated by CRISPRi. doi.org/10.1101/2023.07.19.5…
4/ Finally, we created a random forest machine-learning model, 3D-HiChAT, that uses 1D- (ATAC-seq and H3K27ac ChIP-seq) and 3D-information (H3K27ac HiChIP) to predict gene expression and nominate putative enhancers, which we validated by targeted CRISPRi.
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Thank you to my co-leads in this project @SalataAda and @appolyzos, @efapostolou29 for the mentorship and guidance, and our many collaborators including @artsinyc. Excited to be able to share this work!
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Dylan Murphy retweeted
Happy Thanksgiving everyone! My favorite American holiday! Special thanks to my incredible students Bobbie @bpelhamwebb and Dylan @djmurph93 for putting together this wonderful review during the pandemic. 3D chromatin in reprogramming and self-renewal. cell.com/stem-cell-reports/f…
Dylan Murphy retweeted
Thrilled to share that our multi-PI U01 grant with Danwei Huangfu and Christina Leslie got awarded by @4DNucleome!!! #WomenInSTEM rock! Postdocs and students with passion in 3D chromatin, enhancer function and cell fate decisions are needed!!! Please contact me!
Dylan Murphy retweeted
#WCM scientists have discovered how a key transcription factor protein called KLF4 helps “reprogram” skin cells into stem cells.
Drs. Effie Apostolou (@efapostolou29), Dafne Campigli di Giammartino & Alexander Polyzos of #WCM published in @NatureCellBio.
bit.ly/34JZH1w
Dylan Murphy retweeted
Credits to @CampigliDi @AlexPPolyzos @AndreasKloetgen for the amazing teamwork and all the authors (on twitter or not) for the critical contributions. @Abderhman1994 @Dylanmurphy @boazaronson.
Dylan Murphy retweeted
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Dylan Murphy retweeted
A heavily revised version of our manuscript for the role of KLF4 in the organization and regulation of 3D enhancer networks is now uploaded at BioRXV. Hopefully soon in press... biorxiv.org/content/10.1101/…
