Thrilled to share that our scE2G paper is now published in Nature Genetics! www.nature.com/articles/s41... scE2G predicts enhancer-gene regulatory interactions from single-cell data with state-of-the-art performance. Amazing work led by @mayayayas.bsky.social and @613weilin.bsky.social!

Mapping enhancer–gene regulatory interactions from single-cell data - Nature Genetics

scE2G is a family of models that predict enhancer–gene regulatory interactions from single-cell datasets and enable mapping of these interactions across diverse cell types and tissues.

nature.com

Jesse Engreitz@jengreitz.bsky.social · 2d ago

Update: scE2G is now online at Nature Genetics! Since the preprint, we added a new benchmark on a fully held-out CRISPR dataset. scE2G continues to show state-of-the-art performance, reinforcing that it generalizes well nature.com/articles/s41588-026-02695-8 1/

Why do intrinsically disordered proteins behave so weirdly during SDS-PAGE? This is the question we aim to answer in our recent paper: onlinelibrary.wiley.com/doi/10.1002/...

Sequence determinants of the hypomobility of intrinsically disordered proteins in <fc>SDS</fc>‐<fc>PAGE</fc>

Proteins with intrinsically disordered regions (IDRs) migrate at a higher apparent molecular weight in sodium dodecyl sulfate (SDS)-polyacrylamide gel electrophoresis, complicating their analysis and...

onlinelibrary.wiley.com

Now online! Co-option of retrotransposons promotes antibody diversification

Co-option of retrotransposons promotes antibody diversification

A longstanding mystery in antibody diversification is how AID specifically targets immunoglobulin V genes. Ancient LINE-1 retrotransposons embedded within the immunoglobulin locus provide a recruitment platform for the HUSH complex and AID to drive somatic hypermutation.

dlvr.it

Our study published today @science.org shows that X-chromosome inactivation (XCI) attracts L1 mutations to the human X chromosome: doi.org/10.1126/scie... With outstanding Perspective from @aurelien-doucet.bsky.social & @retrogenomics.bsky.social: doi.org/10.1126/scie...

Sailing in @biorxivpreprint.bsky.social ready for summer, our study on the iconic Portuguese man o' war 🪼 is out: www.biorxiv.org/content/10.6.... We use (epi)genomics to understand a critter that fascinates me since childhood. Massive team effort with @obog.bsky.social, Cummins and Neely groups. 🧵

Happy to share the final version of our study on the evolution of chromatin states across eukaryotes, out today in @natgenet.nature.com Led by @crisnava.bsky.social and @seanamontgomery.bsky.social www.nature.com/articles/s41... Some highlights below

Diversity and evolution of chromatin regulatory states across eukaryotes - Nature Genetics

This study introduces iChIP2, a low-input chromatin immunoprecipitation followed by sequencing method that profiles histone post-translational modifications (hPTMs) simultaneously across diverse eukar...

nature.com

🪰 The latest #Drosophila study in #GENETICS characterizes genetic factors contributing to drive strength in a sample of inbred lines, providing novel insights into the complex dynamics of Segregation Distorter chromosomes and their suppressors. 🔗 buff.ly/1FkZ5zq

Open position in our lab for a research engineer. The applicant must hold a PhD in life sciences and have demonstrable experience in molecular biology and biochemistry. For more info: emploi.cnrs.fr/Offres/CDD/U...

Institut Jacques Monod@ijmonod.bsky.social · 6d ago

#JobOffer 💼 Research Engineer (M/F) 📆 October 15th 📍Institut Jacques Monod, @sandraduharcourt.bsky.social 🔗 emploi.cnrs.fr/Offres/CDD/U...

I am very excited to share the work of my PhD with @eddaschulz.bsky.social, now on BioRxiv! 🎉 🧵⬇️ (1/9) How does the transcription↔️chromatin crosstalk ensure monoallelic expression?

bioRxivpreprint@biorxivpreprint.bsky.social · last wk.

Transcription-dependent heterochromatin at the Xist promoter shapes the random choice of the inactive X chromosome https://www.biorxiv.org/content/10.64898/2026.07.22.737064v1

Avocados come in 2 varieties - A-types start each day female and switch to male midday. B-types do the reverse. In work just published from the last chapter of my PhD, we show this system evolved 40+million yrs ago and is regulated by alleles of 1 transcription factor www.pnas.org/doi/10.1073/...

Balanced polymorphism in a floral transcription factor underlies the ancient rhythm of daily sex alternation in avocado | PNAS

In avocado and certain wild relatives in Lauraceae, a highly synchronized daily rhythm of floral sex timing promotes cross-pollination between two ...

pnas.org

New preprint: 338 coleopteran genomes reveal exceptional rearrangement variation compared to other insect orders. Big congrats to @arf-mln.bsky.social, for getting this giant piece together. Big collaboration of @joanameier.bsky.social's and my groups. 🧵👇 doi.org/10.64898/202...

My first first-author paper from my PhD is out! Check it out in @plosbiology.org

PLOS Biology@plosbiology.org · 2w ago

Reproductive organs from different species contain conserved cell types. This study compares single-cell data of two Drosophila species, showing that some testis cell types are hotspots for gene expression #evolution, while ovarian cells are more conserved. 🧪 #AcademicSky plos.io/4hqIkMd

Excited to share our now published paper @cp-cell.bsky.social highlighting advances in modeling the evolution of protein-protein interactions with MSA Pairformer. Big thanks to Zhidian Zhang, Olivia Tang, @eunbelivable.bsky.social @milot.bsky.social @martinsteinegger.bsky.social and @sokrypton.org!

Expanding the scope of protein language modeling to protein-protein interactions with MSA Pairformer

Protein language models have excelled at modeling individual proteins, but extending these capabilities to protein complexes remains a major challenge. MSA Pairformer, a parameter-efficient protein la...

cell.com

Priscillia Lhoumaud and I were very happy to write a N&V for a monster paper about intriguing DNMT1 biology by @mafdawson.bsky.social and co, just out in @natgenet.nature.com . Check it out here (and the actual paper in the next post) (1/2) www.nature.com/articles/s41...

SUMOylation fine-tunes DNMT1 to silence viral mimicry transcripts - Nature Genetics

DNMT1 binds unmethylated CpG islands at active genes and, upon catalytic inhibition, redistributes to partially methylated, inaccessible regions, triggering viral mimicry via endogenous retroelements ...

nature.com

1/4 Every good defence needs a backup! 🛡️⚔ Out now in @natrevmicro.nature.com our Comment on "𝗶𝗺𝗺𝘂𝗻𝗲 𝘀𝗮𝗳𝗲𝗴𝘂𝗮𝗿𝗱𝗶𝗻𝗴"! 🎉 🔗 www.nature.com/articles/s41...

Immune safeguarding as a conserved principle of antiviral defence - Nature Reviews Microbiology

All organisms defend against viral infections through active immunity mechanisms that clear the virus or population-level mechanisms that cause regulated cell death. Recent research increasingly shows...

nature.com

The third chapter in our coral single-cell trilogy is here. After mapping cell type diversity in Stylophora (Levy 2021) and exploring facultative symbiosis in Oculina (Levy 2025), we now uncover cell type-specific responses to heat stress. Find out more in @xgrau.bsky.social's thread below.

Cell-resolved transcriptional responses during heat-induced coral bleaching and recovery

Coral reefs depend on an intracellular symbiosis between cnidarian hosts and photosynthetic dinoflagellates that is disrupted by ocean warming, causing coral bleaching. Yet how these responses are dis...

biorxiv.org

Xavier Grau-Bové 🌾@xgrau.bsky.social · 2w ago

I'm happy to share our latest on #coral single-cell biology: a transcriptomic timecourse of heat stress in Stylophora pistillata, from bleaching to recovery 🪸🌊 This project was spearheaded by Shani Levy and carried through in @arnausebe.bsky.social's lab at @crg.eu. www.biorxiv.org/content/10.6...

After four years, several updates and a handful of CRAN releases, 𝗹𝘁𝗰 𝗰𝗼𝗹𝗼𝗿 𝗽𝗮𝗹𝗲𝘁𝘁𝗲 𝗥-𝗽𝗮𝗰𝗸𝗮𝗴𝗲, reached a version I feel genuinely good about sharing with the community. github.com/loukesio/ltc...

Hello World ! We have another postdoc position open in the lab! Are you a freshly minted Ph.D. with a passion for chromatin and evolution ? Come join our ERC project #EvoEpi ! Inclusive environment + cool people + great science = success details 👉 tinyurl.com/3r6zk54n Repost are always appreciated

Ironically, as @mart1oeil.eu showed, there are telltale signs that the piece was edited with ChatGPT: many links include "?utm_source=chatgpt.com" If even Science editorial team cannot afford good human editing, that's worrying

Jed Brown@jedbrown.org · 3w ago

Editor in Chief of Science: AI in scientific publishing: Slower, worse, and more expensive.

How do transposons jump when they’re released from host control? I babysat two chromosomes for 2 years, making sure they are ok without most piRNAs. Here’s what we found & excited to share my 1st postdoc paper: “piRNA loss unleashes episodic transposition bursts” www.biorxiv.org/content/10.6...

piRNA loss unleashes episodic transposition bursts

In Metazoa, transposon expression is suppressed by the piRNA pathway, and disruption of this pathway leads to rampant transposon expression. However, it remains unclear whether increased transposon ex...

biorxiv.org

Cool study! TEs in the male Drosophila germline jump in bursts

bioRxiv Genetics@biorxiv-genetic.bsky.social · 3w ago

piRNA loss unleashes episodic transposition bursts https://www.biorxiv.org/content/10.64898/2026.07.11.737971v1

I am starting my lab at the University of Geneva next January! Incredibly excited to soon be joining the MOCEL department as an Asst. Professor. The lab will use evolutionary cell biology to study chromosomes, centromeres & speciation 🧬🔬🌱 Intrigued, want to join or collaborate? 🔗 helsenlab.org

Helsen lab | chromosome and centromere evolution

The Helsen lab at the University of Geneva explores how centromeres and chromosomes evolve, diversify, and function across eukaryotes. Discover our latest publications, research team, and open positio...

helsenlab.org

Manuscripts with women as corresponding authors are less frequently sent out for review at Science. The ones reviewed receive less favorable reviews by both male and female reviewers.

Javi Ibarrondo@jibarrondo.bsky.social · 3w ago

Editorial and peer review dynamics at elite general science journals | Science Advances www.science.org/doi/10.1126/... 🧪

Just watched the 1st episode of #Evolution with my daughter. It’s so beautiful! An absolute #MustWatch www.bbcearth.com/shows/evolut...

Lindsey Graham was one of the main subjects of a @theatlantic.com cover story I wrote in 2020, on why people collaborate with regimes they know are immoral. Here's a gift link: www.theatlantic.com/magazine/arc...

History Will Judge the Complicit

Why have Republican leaders abandoned their principles in support of an immoral and dangerous president?

theatlantic.com

No models. No satellites. Just 50 years of Burgundy harvest dates: ~4.1 days earlier every decade. Climate change, written on a cellar wall. 🍷 🇫🇷 🧫

Took me a while, but we finally have a new lab website: ydagdas-lab.github.io/Lab-Website/ I will do my best to keep this one up to date.

Dagdas Lab — Evolutionary Cell Biology

How cells clean house across the eukaryotic tree of life. Autophagy & cellular quality control at Heidelberg University.

ydagdas-lab.github.io

🚨New preprint!🚨 Lack of specific affinity reagents hinders studies of signalling mechanisms. We show that sdAbs provide a robust scaffold for making linkage-specific ubiquitin binders, exemplified by 2A6, a versatile reagent for M1-linked ubiquitin chains. www.biorxiv.org/content/10.6...

Excited to be able to advertise 1x postdoc and 2x technician positions to join my group in Cambridge working on an exciting ARIA funded project to help bring a plant artificial chromosome into existence! Reposts very welcome please 🙏 (1/2)

I had an (honestly) really fun time writing up an "In Preprints" piece on the two fantastic studies from @grandlab.bsky.social and @schubelerlab.bsky.social. Check it out here. I have also put the original threads from the authors below. journals.biologists.com/dev/article/...

In preprints – housekeeping the housekeeping genes

The term ‘housekeeping gene’ evokes a sense of banality. These are the boring genes that hum in the background, impervious to cell state or stress. For a developmental biologist captivated by the impa...

journals.biologists.com