Emmanuel Cazottes
@manucazottes.bsky.social
260 followers 630 following 9 posts
Gene regulation, ML and stem cells | Postdoctoral fellow w/ @carldeboer.bsky.social @sbmeubc.bsky.social | PhD w/ @crougeulle.bsky.social @upcite.bsky.social | Roamer of the non-coding genome 🌐 https://emmanuelczt.github.io/
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Reposted by Emmanuel Cazottes
carldeboer.bsky.social
SOOOO MANY GENOMICS MODELSSSS! 😱 Often unclear which is best since they benchmark differently! In this preprint, we introduce GAME, a new framework that utilizes APIs to enable sustainable, uniform model evaluation so we can see which is actually best for each task. doi.org/10.1101/2025...
Reposted by Emmanuel Cazottes
ee-reh-neh.bsky.social
We tile through ~300 ultra conserved elements 10bp at a time in 6 taxa (some alive, some extinct), to ask, are they the reason the two skulls below- separated by 160 million years of evolution - are so similar?

(image from former PhD student Laura Cook)
Black and white photos of a thylacine (now extinct) and a grey wolf, in the same pose, looking pretty similar! Lateral adult skull of the c. thylacine and d. wolf. Ventral adult cranium of the e. thylacine and f. wolf. They also look pretty similar!
Reposted by Emmanuel Cazottes
stephenturner.us
The evolutionary foundations of transcriptional regulation in animals www.nature.com/articles/s41... (read free: rdcu.be/evDcA) 🧬🖥️🧪
Reposted by Emmanuel Cazottes
nzmyachie.bsky.social
CAGT was fun! Thanks @carldeboer.bsky.social @sudpinglay.bsky.social and the de Boer lab for organizing! Folks from Seattle, Oregon, and other places. Great community. Arman gave a usual super talk, and Sanchit and Dayag won poster prizes☺️
Reposted by Emmanuel Cazottes
epigenetichulk.bsky.social
EPIGENETIC HULK READY TO SMASH AGAIN! GET IN LOSERS!
Reposted by Emmanuel Cazottes
Reposted by Emmanuel Cazottes
manusaraswat.bsky.social
🧠 Excited to share my main PhD project! We mapped the regulatory rules governing Glioblastoma plasticity using single-cell multi-omics and deep learning. This work is part of a two-paper series with @bayraktarlab.bsky.social @oliverstegle.bsky.social and @moritzmall.bsky.social, Preprint at end🧵👇
Reposted by Emmanuel Cazottes
fnucleosome.bsky.social
Join us on Wednesday next week for two exciting talks on transcription regulation from @kasitc.bsky.social and @davidsuter.bsky.social!

You can register at: us06web.zoom.us/webinar/regi...
Reposted by Emmanuel Cazottes
mariekeoudelaar.bsky.social
Very happy to share the peer-reviewed version of our paper in which we study the formation and function of pair-wise and multi-way enhancer-promoter interactions in gene regulation (see thread below): www.nature.com/articles/s41...
Reposted by Emmanuel Cazottes
Reposted by Emmanuel Cazottes
ee-reh-neh.bsky.social
🎉 This paper has been a long time and a labour of love (and hardship) for multiple group members, but, finally: we MPRA'ed 25k introgressed variants (Denisovan and Neanderthal) segregating at allele frequencies > 0.15 in humans today to evaluate their potential to regulate gene expression.
biorxiv-evobio.bsky.social
Mapping the gene regulatory landscape of archaic hominin introgression in modern Papuans https://www.biorxiv.org/content/10.1101/2025.05.04.652069v1
Reposted by Emmanuel Cazottes
Reposted by Emmanuel Cazottes
Reposted by Emmanuel Cazottes
vagar.bsky.social
One of the toughest parts of the field of massively parallel reporter assays to measure >~thousands of elements is that there are hundreds of pubs using them, but no central repo to easily locate the results....until now! Great collab w/ Jingjing Zhao, Ilias G-S, and @nadavahituv.bsky.social!!
MPRAbase a Massively Parallel Reporter Assay database
An international, peer-reviewed genome sciences journal featuring outstanding original research that offers novel insights into the biology of all organisms
genome.cshlp.org
Reposted by Emmanuel Cazottes
denisduboule.bsky.social
Vidéos of the symposium are now available online @collegedefrance.bsky.social Just click and enjoy!🙏🏼🤘
college-de-france.fr
#Science #Biologie
🧬 "Enhancers Sequences and Gene Regulation"
🖥️ Les vidéos du colloque organisé par le Pr @denisduboule.bsky.social, titulaire de la chaire Évolution du développement et des génomes, sont disponibles.
👉 www.college-de-france.fr/fr/agenda/co...
Reposted by Emmanuel Cazottes
michaeltmont.bsky.social
I am elated to share that our manuscript describing Variant-EFFECTS, a high-throughput technology we developed to precisely and quantitatively measure the effects of CRISPR-mediated edits on gene expression, is now published at @cellpress.bsky.social: authors.elsevier.com/c/1kxgiL7PXu...
authors.elsevier.com
Reposted by Emmanuel Cazottes
ubcpostdocs.bsky.social
Join the UBC and SFU Postdocs for a social at the Bloedel Conservatory and Queen Elizabeth Park on Thursday 17th April!

4-5 PM - Bloedel Conservatory (Free Entry)

5 PM - BBQ at QE Park

Feel free to join for both parts of the event or just one.

Register now: ubc.ca1.qualtrics.com/jfe/form/SV_...
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Reposted by Emmanuel Cazottes
arnaudkr.bsky.social
The importance of moving away from bulk! Occupancy of Pol II at promoters is dramatically different between fly and mouse cells! When looking single molecule! Proud of the team! @kasitc.bsky.social @molinalab.bsky.social doi.org/10.1038/s443...
Reposted by Emmanuel Cazottes
lucagiorgetti.bsky.social
Celebrating 10 years of our lab with a new preprint:
www.biorxiv.org/content/10.1...
How does enhancer location within a TAD control transcriptional bursts from a cognate promoter?
Experiments by Jana Tünnermann and modelling by Gregory Roth
manucazottes.bsky.social
Join us for the first edition of the Cascadia Advanced Genomic Technologies meeting! We aim at fostering collaborations to tackle critical challenges in mammalian genomics. Info and registration link below 👇