It was a fantastic exploration during my PhD, a new method, with new struggles. I had an amazing team of Artem and Aleksander to deal with all of them. Also my first experience of project supervision, it was hard but extremely cool. And thanks to @mardzix.bsky.social and Pepe for all the support!

Mannervik Lab@mannerviklab.bsky.social · 3mo ago

Have you ever wondered how chromatin states shape developmental trajectories? In our preprint, we address this question using single-cell nanoCUT&Tag, a method developed by Marek Bartosovic @mardzix.bsky.social, which simultaneously profiles active H3K27ac and repressive H3K27me3 in the same nucleus

Have you ever wondered how chromatin states shape developmental trajectories? In our preprint, we address this question using single-cell nanoCUT&Tag, a method developed by Marek Bartosovic @mardzix.bsky.social, which simultaneously profiles active H3K27ac and repressive H3K27me3 in the same nucleus

(1/14) Excited to share our new preprint: ArChIPelago — classic ML on top of multiple PWMs improves genomic TFBS prediction. shorturl.at/jnxDA Builds on our MEX paper (Vorontsov et al., 2025). w/ @pensarata.bsky.social @vorontsovie.bsky.social @sevamakeev.bsky.social @halfacrocodile.bsky.social

Fascinating work on enigmatic octopuses with my wife’s @tatiana-atpase.bsky.social MD simulations! Huge congrats to the lab, where she makes her PhD @eriklindahl.bsky.social, and the collaborators lead the project @nbellono.bsky.social!

Science Magazine@science.org · 5mo ago

Male octopuses use a specialized arm that acts as both a sensory and reproductive organ to navigate the female’s mantle, locate oviducts, and transfer sperm. These findings reveal how sensory systems shape reproductive behavior and drive speciation. Learn more in Science: https://scim.ag/4dYMtFq

Male octopuses use a specialized arm that acts as both a sensory and reproductive organ to navigate the female’s mantle, locate oviducts, and transfer sperm. These findings reveal how sensory systems shape reproductive behavior and drive speciation. Learn more in Science: https://scim.ag/4dYMtFq

If you know a graduating undergraduate looking for the chance to spend 1-2 years in a lab before graduate school, we're hiring! Our lab explores morphogenesis, defining how the cell adhesion & cytoskeletal machinery work together to allow cells to change shape & move tarheels.live/peiferlab/ 1/n RT

Evdokimova, A. A., Kolesnikova, T. D., Mazina, M. Y., ...., Vorobyeva, N. E. (2025). Transcriptional induction by ecdysone in Drosophila salivary glands involves an increase in chromatin accessibility and acetylation. Nucleic Acids Res, 53(7) pmc.ncbi.nlm.nih.gov/articles/PMC...

I am very happy (and a bit scared) to present to you what we have been working on over the last 4 years. This manuscript is exactly what I dreamt of when I started the lab and I could not be happier and prouder of the outcome!

bioRxivpreprint@biorxivpreprint.bsky.social · 7mo ago

Evolutionary dynamics of temporal transcription factor series in the insect optic lobe https://www.biorxiv.org/content/10.64898/2026.01.08.698497v1

1/ 🎄 We got our Christmas present today: "Two distinct chromatin modules regulate proinflammatory gene expression" is now published @natcellbio.nature.com doi.org/10.1038/s415.... Our study introduces a scATAC-seq-based framework for genome-wide analysis of gene regulation features.

Excited to share the final version of our study on Nematostella cell type regulatory programs. Part of our @erc.europa.eu StG project, this was a challenging 5-year effort extraodinarily led by @aelek.bsky.social and @martaig.bsky.social. www.nature.com/articles/s41...

Decoding cnidarian cell type gene regulation - Nature Ecology & Evolution

This study reconstructs the gene regulatory networks that define cell types in the sea anemone Nematostella vectensis, providing a valuable resource for comparative regulatory genomics and the evoluti...

nature.com

Thrilled to share that I’ll be joining @imbmainz.bsky.social in February 2026 to start my own group! We will explore new mechanisms in eukaryotic gene expression, leveraging ‘evolutionary play’ to uncover how regulation, repurposing, and hijacking shape RNA biology. PhD positions available!

Kicked off a series on #Drosophila TE discovery and naming. The first post covers elements that predate the term "mobile element", and more. artemilin.dev/posts/te_nam...

🧬Postdoc position alert! 🚨 We're hiring a postoc in Computational Modeling of Epigenetic Inheritance at the Hubrecht Institute (Alexander van Oudenaarden, Utrecht 🇳🇱) & Danish Cancer Institute (Anja Groth, Copenhagen 🇩🇰). Come work in our collaberative team of top scientists shorturl.at/avBBy

We are looking for a student to continue our work on chromatin evolution: www.nature.com/articles/s41... www.biorxiv.org/content/10.1... The project with @seanamontgomery.bsky.social will focus on chromatin state readers across eukaryotes. More info: recruitment.crg.eu/content/jobs...

The "reproducibility crisis" in science constantly makes headlines. Repro efforts are often limited. What if you could assess reproducibility of an entire field? That's what @brunolemaitre.bsky.social et al. have done. Fly immunity is highly replicable & offers lessons for #metascience A 🧵 1/n

To be or not to be 🤴💀: read how hamlet orchestrates the assembly of adult male reproductive system in #Drosophila in a new paper from our colleagues! Led by Huazhen Wang, a PhD student in Qi Dai group, the study explores how this protein mediates the fusion of testis and supportive gonadal tissue

Drosophila hamlet mediates epithelial tissue assembly of the reproductive system

Hamlet regulates heterotypic epithelial fusion by controlling spatial and temporal expression of known and novel epithelial regulators like Wnt and Tl pathway components, a mechanism potentially conse...

doi.org

Happy to announce a new preprint from my lab looking in to the establishment of polycomb domains in early fly development and contributions from pioneer factors Zelda and GAGA-factor.

bioRxiv Developmental Biology@biorxiv-devbio.bsky.social · last yr.

Nucleation-dependent propagation of Polycomb modifications emerges during the Drosophila maternal to zygotic transition https://www.biorxiv.org/content/10.1101/2025.07.02.662854v1

How did life begin & why does it matter? A new ASM report, supported by the Gordon and Betty Moore Foundation, explores the origins of microbial life & how understanding it can help tackle some of humanity’s biggest questions around climate, biotech & more. Press release➡️ asm.org/press-releas...

Textbooks: “Enhancers are just a bunch of TFBSs” But how do they REALLY work? New paper with many contributors here @berkeleylab.lbl.gov, @anshulkundaje.bsky.social, @anusri.bsky.social A 🧵 (1/n) Free access link: rdcu.be/erD22

The amazing projects wait for curious minds! From fly genetics to transcriptional kinetics, from whole-embryo single-cell atlases to the charming chromatin microscopy! Welcoming at @stockholm-uni.bsky.social #epigenetics #chromatin #DevBio

Mannervik Lab@mannerviklab.bsky.social · last yr.

Curious about epigenetics, gene regulation, and developmental biology? Apply for the PhD position in Mannervik lab at Stockholm University! We use single-cell genomics and genetic approaches to uncover how cells acquire their identities during development. Explore the chromatin landscape with us!

We currently have a call for support that has gone out to European labs, to support FlyBase-UK. We are asking our colleagues from labs in the US and other countries to wait for a similar call to them that will go out in the near future, to support the US sites. We thank you for your patience.

Mark A. Hanson@hansonmark.bsky.social · last yr.

URGENT: FlyBase has lost practically all its funding overnight; even user fees are tied up in denied grant funding. 🤬🤯 Any lab using @flybase.bsky.social please donate using the link in post below. This incredible community, on whose backs our #Drosophila labs depend, can't be left out to dry.

Very interesting! I liked James's comment "We should probably think of decision making as a dynamical process rather than an event. And relate to this to dev bio concepts such as competence, specification and commitment." I wonder how it would look like if applied to scATAC/scCUT&Tag data. Fuzzier?

James Briscoe@jamesbriscoe.bsky.social · last yr.

Surprising Finding: Studying neural tube differentiation, we discovered an unexpected circular topology Cells that initially diverge into different lineages can converge through multiple routes to the same fate This challenges the traditional "branching tree" view of development

Excited to share our new paper in @cp-molcell.bsky.social Molecular Cell: "Catalytic-dependent and independent functions of the histone acetyltransferase CBP promote pioneer-factor-mediated zygotic genome activation" — the big part of my PhD! www.cell.com/molecular-ce...

Catalytic-dependent and independent functions of the histone acetyltransferase CBP promote pioneer-factor-mediated zygotic genome activation

Marsh, Pirogov, et al. use the early Drosophila embryo to demonstrate that the conserved histone acetyltransferase CBP is required for pioneer-factor-mediated transcriptional activation of the zygotic...

cell.com

The superb conference in EMBL Epigenetics&Chromatin is over. Fantastic talks, a lot of incredible research in the poster section. I was glad to present two of my PhD projects: catalytic and non-catalytic function of CBP/p300 in development, and single-cell epigenetic landscapes of Drosophila embryo.

Attending the EMBL conference on Chromatin and epigenetics www.embl.org/about/info/c... ?? Check out posters 184 and 185 by SCENTINEL partners Mattias Mannervik and Sergei Pirogov, cbp/p300 unexpected function! Just accepted! doi.org/10.1101/2024...

Catalytic-dependent and independent functions of the histone acetyltransferase CBP promote pioneer factor-mediated zygotic genome activation

Immediately after fertilization the genome is transcriptionally quiescent. Maternally encoded pioneer transcription factors reprogram the chromatin state and facilitate the transcription of the zygoti...

doi.org

I’m very excited to share our work on the early evolution of animal regulatory genome architecture - the main project of my postdoc, carried out across two wonderful and inspirational labs of @arnausebe.bsky.social and @mamartirenom.bsky.social. www.nature.com/articles/s41...

Chromatin loops are an ancestral hallmark of the animal regulatory genome - Nature

The physical organization of the genome in non-bilaterian animals and their closest unicellular relatives is characterized; comparative analysis shows chromatin looping is a conserved feature of ...

nature.com

Read the paper here! www.biorxiv.org/content/10.1... Congrats to Janith and the rest of the lab @petermaccc.bsky.social, and thanks to collaborators Shabih Shakeel @wehi-research.bsky.social, @benparkerlab.bsky.social and @burrlab.bsky.social, and ongoing support from @snowmedical.bsky.social (6/6)

Embryonic stem cell factors DPPA2/4 facilitate a unique chromatin state in non-small cell lung cancer

Embryonic regulators are often re-expressed in cancers, however the functional and molecular significance of this is not always understood. The epigenetic priming factors Developmental Pluripotency As...

biorxiv.org

Last day to apply to a PhD position in my lab - comparative epigenomic project focusing on development nad evolution of the human brain. Apply below 👇

Marek Bartosovic@mardzix.bsky.social · last yr.

PhD Position Available! 🧑‍🎓🧠🧬 We’re looking for a motivated PhD student to join our team and explore the fascinating world of human brain development and evolution. su.varbi.com/what:job/job...

Our recent paper reports extremely long-range (up to 5.1 Mb 😲) regulation of certain genes in fly neurons and provides new insights into how they form (see short thread below 👇). genesdev.cshlp.org/gca?gca=gene...

Thrilled to see my postdoc work at Adelman Lab @hms-bcmp.bsky.social on Integrator(INT) now out @cp-cell.bsky.social. We found that INT deficiency allows immature+unlicensed RNAPII to precociously enter genes. This immature RNAPII can transcribe short genes but terminates prematurely in long genes: