Axel Delamarre
Group Leader at the LBMC, ENS-Lyon, starting April 2026
Postdoc in the Whitehouse lab, MSKCC, NYC.
PhD in the Pasero lab, IGH, France.
- Reposted by Axel DelamarreYet another reason why butterflies and moths are so interesting! Unlike other studied organisms that organise their DNA into two forms of chromatin, silkworms have a mysterious third form of chromatin folding..
- How do compartmentalization & loop extrusion organize eukaryotic genomes beyond classical model organisms? Hi-C analysis of silkworm chromosomes by Drinnenberg, Muller, Mirny et al reveals new combination of these mechanisms, and a new, secluded “S” compartment link.springer.com/article/10.1...
- Reposted by Axel DelamarreComing soon! PhD opening joint with @drjonbaxter.bsky.social at @gdsc-sussex.bsky.social Keep a look out and get in touch if you are interested in any and all of: Chromosomes, Genome Stability, Chromatin and DNA Topology in Mitosis and Meiosis.
- Reposted by Axel DelamarreWe are hiring!
- Reposted by Axel DelamarrePlease repost and consider applying: we work in such a fantastic context, we ask so interesting questions, and we have such a collegial and best-willing atmosphere… CRBM = Happy & Good Science
- Reposted by Axel Delamarre🚨 New preprint from the lab. Combining modeling and data analysis of SisterC data in yeast, we investigate cohesion of replicated chromosomes and show that sister chromatids are loosely and asymmetrically aligned in G2/M. Check the tweetorial below ⬇️ www.biorxiv.org/content/10.6...
- Reposted by Axel Delamarre🔔 New paper alert 🔔 www.nature.com/articles/s41... Some regions in the genome replicate early and some late, but the why and how remain poorly understood. DNA replication and 3D genome organization appear linked, raising the question if one may regulate the other? (1/n)
- Reposted by Axel DelamarreExcited to share my PhD work from @riscalab.bsky.social on @biorxivpreprint.bsky.social CAD-C & CADwalks –repair-free, nucleosome-resolution chromosome conformation capture with engineered TEVp-activatable CAD. CADwalks: chromosome walks of ligated CAD footprints. doi.org/10.64898/202... 1/
- Reposted by Axel DelamarreEpigenetics Update - Interplay between cohesin and RNA polymerase II in regulating chromatin interactions and gene transcription go.nature.com/49iRJkK Albert W. Cheng and Yijun Ruan (Jackson Laboratory) reporting in NSMB #Epigenetics #Chromatin --- Discover the breakthrough at epigenometech.com
- Reposted by Axel DelamarreTakao Ono, Tatsuya Hirano et al. show that #condensin II collaborates with #cohesin to establish and maintain #chromosome territories, revealing a cooperative mechanism supporting large-scale #genome organization in #interphase. rupress.org/jcb/article/... #CellCycle #Biochemistry #Chromatin
- Reposted by Axel DelamarreSMC and recombination enthusiasts: we updated our work describing the loop extrusion properties of budding yeast condensin and its function in biasing donor usage for mating-type switching. Lots of cool new data, check it out! www.biorxiv.org/content/10.1...
- Reposted by Axel DelamarreHappy to share our new review on 3D chromatin organisation by cohesin with you. It was a great pleasure to review recent advances and future prospects with @danielgerlich.bsky.social.
- Reposted by Axel DelamarreCAD-C: An engineered nuclease enables repair-free in situ proximity ligation and nucleosome-resolution chromosome walks in human cells biorxiv.org/content/10.64898/20…
- Reposted by Axel Delamarre
- Reposted by Axel Delamarre🚨Our work on the impact of DNA replication on 3D genome is out in Genome Biology: replication-dependent loop extrusion by sister-forks, wave of replication, no evidence for large-scale replication factory. Great collab with @aurelepiazza.bsky.social. More here: link.springer.com/article/10.1...
- 🚨 new preprint from the lab. Combining modeling, new Hi-C data in yeast and data analysis, our study offers new insights into the spatial and dynamic organization of chromatin during replication in eukaryotes. Check the tweetorial below ⬇️ www.biorxiv.org/content/10.1...
- A thread on our latest paper from the Whitehouse lab
- Hi all! We developed CAD-C to map chromatin organization at high res in yeast. It revealed an unexpected tight alignment: nucleosomes covering the same sequence tend to be associated across sister chromatids. www.biorxiv.org/content/10.6... #3DGenome #chromatin #Cohesin #centromere
- Hi all! We developed CAD-C to map chromatin organization at high res in yeast. It revealed an unexpected tight alignment: nucleosomes covering the same sequence tend to be associated across sister chromatids. www.biorxiv.org/content/10.6... #3DGenome #chromatin #Cohesin #centromere
- Limits common to 3D mapping assay like Micro-C and Hi-C are: - limited resolution - inability to detect multiway interactions - difficulty to distinguish Cis vs Trans sister chromatid interactions (that share same sequence) By improving proximity ligation efficiency, we alleviate these limits
- CAD-C uses CAD (Caspase Activated DNase) to digest crosslinked chromatin to the nucleosome level. The advantage over MNase is that subsequent ligation is more efficient. Instead of a classical di-nucleosome ligation product, we get concatenates of multiple nucleosomes ligation
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View full threadThanks to everyone involved! Check the pre-print if you want to know more!
- Reposted by Axel DelamarreCAD-C reveals centromere pairing and near-perfect alignment of sister chromatids biorxiv.org/content/10.64898/20…
- Hello everybody, I am looking for an Engineer (IE) to help me start the lab at LBMC / ENS-Lyon in April. We will investigate chromatin organization during replication in yeast. RT appreciated! To apply: inserm.softy.pro/offre/187863 @lbmcinlyon.bsky.social #NewPI #3DGenome #chromatin #replication
- Hi all ! Happy to share that I will open a lab at the LBMC at ENS-Lyon thanks to the #ATIP-Avenir funding. We will investigate the role the 3D chromatin organization in Replication and Repair. www.ens-lyon.fr/LBMC/equipes... Job offers out soon! #NewPI #3DGenome #chromatin #replication
- Reposted by Axel DelamarreTo probe gene-scale chromatin physics, we built 96-mer (20 kb) arrays with defined histone marks. Combining single-molecule tracking, AFM imaging, and developing in vitro Hi-C, we saw how specific modifications dictate chromatin structure and dynamics. www.science.org/doi/10.1126/...
- Reposted by Axel DelamarreLast reminder: We’ll see you bright and early at 9:30 AM EST on the 25th to kick off #chromatin2025! Fantastic lineup of speakers with discussion to follow each talk. Don’t forget to register for this virtual meeting if you haven’t yet: bit.ly/chromatin-2025
- Reposted by Axel DelamarreOur latest paper has just been published in Cell! doi.org/10.1016/j.ce... We developed a new method called MCC ultra, which allows 3D chromatin structure to be visualised with a 1 base pair pixel size.
- Reposted by Axel DelamarreHappy to share our latest publication, in which we show that the arrangement of nucleosomes around CTCF sites contributes to higher-order organisation of chromatin into TADs: www.embopress.org/doi/full/10....
- Reposted by Axel DelamarreBIG ANNOUNCEMENT📣: I haven’t been this excited to be part of something new in 15 years… Thrilled to reveal the passion project I’ve been working on for the past year and a half!🙀🥳 (thread 👇)
- Reposted by Axel DelamarreToday I am so pleased to present our work on how chromatin remodelers affect mesoscale chromatin organization. www.science.org/doi/10.1126/...
- Reposted by Axel DelamarreNew preprint from the lab !! Loop extrusion may provide mechanical robustness to chromatin. Great work by Hossein Salari. @cnrs.fr @lbmcinlyon.bsky.social www.biorxiv.org/content/10.1...
- Reposted by Axel DelamarreThrilled that our work is now finally out in Nature Comms! rdcu.be/eG3vP We reveal cryo-EM structures of the MRN complex bound to DNA & TRF2 - showing how DNA breaks are sensed and regulated at telomeres. Fantastic work by first authors @yilanfan.bsky.social @filizkuybu.bsky.social & Hengjun!
- Reposted by Axel DelamarreCongrats to my friends in the Boettiger lab for this really beautiful live imaging work. A big leap forward in understanding the dynamic side of genome organization. www.science.org/doi/10.1126/...
- Reposted by Axel DelamarreOur new preprint is out＠bioRxiv: www.biorxiv.org/content/10.1... @masaashimazoe.bsky.social et al. reveal that linker histone H1 acts as a liquid-like glue to organize chromatin in living cells. 🎉 Fantastic collab with @rcollepardo.bsky.social @janhuemar.bsky.social and others—huge thanks! 🙌 1/
- Reposted by Axel DelamarreWe’re back! Registration is NOW OPEN for the 6th Annual Meeting on Advances in Nuclear Topology & 3D Chromatin Architecture in Cancer. Don’t miss insights from leading experts in the field. Join us online on Nov 25, 2025—register for free: bit.ly/chromatin-2025 #chromatin2025
- Reposted by Axel DelamarreCheckout our latest research in @natcomms.nature.com rdcu.be/eBqBI A high-resolution, nanopore-based artificial intelligence assay for DNA replication stress in human cancer cells. A collaboration with Mike Boemo’s team
- Reposted by Axel DelamarreTranscription and recombination are two universal DNA-dependent processes, but how they are coordinated remains largely unknown. Here we characterized transcription-recombination priority rules in yeast. 🧵 www.embopress.org/doi/full/10....
- Reposted by Axel DelamarreContributions of local structural and energetic features of DNA to large-scale genomic organization [perspective by Wilma Olson & Co) www.sciencedirect.com/science/arti...
- Reposted by Axel DelamarreActivity of most genes is controlled by multiple enhancers, but is there activation coordinated? We leveraged Nanopore to identify a specific set of elements that are simultaneously accessible on the same DNA molecules and are coordinated in their activation. www.biorxiv.org/content/10.1...
- Reposted by Axel DelamarreNew work from @beckof.bsky.social and our lab's collaboration, with @alengronne.bsky.social! Multifaceted influence of transcription on yeast chromosome folding... loop extrusion of course but also active promoters making loops, bypassing centromeres boundaries www.sciencedirect.com/science/arti...
- Reposted by Axel DelamarreNew topology Pre-print from: @alengronne.bsky.social Condensin and topoisomerases cooperate to relieve topological stress at stalled replication forks: biorxiv.org/content/earl...
- Reposted by Axel DelamarreVery excited to share the first preprint of the lab! We show that the nuclear pore protein TPR forms biomolecular condensates which keep heterochromatin away from the nuclear pore complexes and maintains global chromatin organization. Check it out, share it, tell us what you think!!
- Biomolecular condensates at the nuclear pore basket maintain global chromatin organization biorxiv.org/content/10.1101/202…
- Our paper is now out in Molecular Cell! Check the thread in this former post: www.cell.com/molecular-ce...
- Hi everyone! The latest method from the Whitehouse lab: PCP PCP uses a novel proximity barcoding strategy to simultaneously map 3D genome organization at various resolutions at the single molecule level: Out soon, check the updated BioRxiv – little thread: 1/11 www.biorxiv.org/content/10.1...
- Reposted by Axel Delamarre@morielab.bsky.social proudly presents a tool to induce, in S. cerevisiae, DNA double strand breaks in a site-specific AND in a dose-dependent manner, in a very simple way: just transform two plasmids!!! It allows you to assess many aspects of DNA damage signaling & repair! doi.org/10.1111/febs...
- Hi everyone! The latest method from the Whitehouse lab: PCP PCP uses a novel proximity barcoding strategy to simultaneously map 3D genome organization at various resolutions at the single molecule level: Out soon, check the updated BioRxiv – little thread: 1/11 www.biorxiv.org/content/10.1...
- Why a new method for 3D maps? Gold standard high throughput 3C based methods are great but have limits: • multi-way interactions are not assessed • bias toward short-range interactions • output is a population average obscuring population heterogeneity 2/11
- The new method is based on a simple reaction: • A Seed is transcribed to produce a tagRNA carrying: a unique identifier (UMI) and an annealing sequence. • The tagRNAs diffuse and anneal to Receptors sharing the annealing sequence • The annealed tagRNA is copied by RT to “tag” the Receptor 3/11
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View full threadPCP is a versatile method that captures multiple levels of chromatin organization at the single-molecule level all in one experiment! Soon to be out - Check the updated BioRxiv! 11/11 www.biorxiv.org/content/10.1...
- Reposted by Axel DelamarreJoin us for the 2025 GRC Genome Architecture www.grc.org/genome-archi... @spp2202.bsky.social @jobdekker.bsky.social @metorrespadilla.bsky.social @jopkind.bsky.social @dimplenotani.bsky.social @stanleyqilab.bsky.social @andybelmont.bsky.social @fondufemittendorf.bsky.social @boyanbonev.bsky.social
- Reposted by Axel DelamarreExcited to share our preprint on the molecular architecture of heterochromatin in human cells 🧬🔬w/ @jpkreysing.bsky.social, @johannesbetz.bsky.social, @marinalusic.bsky.social, Turoňová lab, @hummerlab.bsky.social @becklab.bsky.social @mpibp.bsky.social 🔗 Preprint here tinyurl.com/3a74uanv
- Excellent thread on the paper from Meneu, Chapard et al. The latest from the Koszul and friends lab! www.science.org/doi/10.1126/...
- Reposted by Axel DelamarreThrilled to share first part of my post-doc work, published today in @science.org www.science.org/doi/10.1126/... We use reconstituted replication system and cryo-EM to unravel an unexpected mechanism of DNA translocation employed by eukaryotic replicative helicase.
- Reposted by Axel DelamarreHow do replisomes walk on DNA? And what happens when they run into a G-quadruplex? @sahilbatra.bsky.social and @benallwein.bsky.social provide unexpected insight in our latest paper with Richard Hite @mskcancercenter.bsky.social @science.org www.science.org/doi/10.1126/.... Congrats to all authors!
- Reposted by Axel DelamarreRoche SBX preprint out www.biorxiv.org/content/10.1...
- Reposted by Axel DelamarreOur latest work: how can compartmentalization emerge in a eukaryotic genome lacking canonical heterochromatin? By investigating bacterial genomes put in yeast, we show that the presence or absence of transcription is sufficient! #chromatin #3Dgenome #generegulation www.science.org/doi/10.1126/... 👇
- Reposted by Axel DelamarreThermodynamic principles link in vitro transcription factor affinities to single-molecule chromatin states in cells www.biorxiv.org/content/10.1... ▶️40-fold flanking sequence effect on TF binding ▶️Motif recognition beats kinetics ▶️Minutes-long residence times ▶️Models of TF-nucleosome competiton
- Reposted by Axel DelamarreWhat is the multiscale structure of chromatin condensates? How does it shape thermodynamic and material properties? We address this at near-atomistic resolution🔥🔥🔥 using cryoET (Rosen & Villa labs, led by H Zhou), a new multiscale model (K Russell) and cryoET-guided sims (J Huertas & J Maristany)
- Exciting new preprint alert! 🚨 The Collepardo lab, teaming up with Huabin Zhou and the Rosen lab we took a deep, high-resolution look into chromatin condensates! [1/6] #Chromatin #MD @rcollepardo.bsky.social @juliamaristany.bsky.social www.biorxiv.org/content/10.1...
- Reposted by Axel DelamarreSuper excited to share our new study from the @jbuenrostro.bsky.social Lab in @nature.com! We developed a computational method for tracking transcription factor and nucleosome binding using single-cell ATAC-seq and deep learning. Paper: www.nature.com/articles/s41...
- Reposted by Axel DelamarreMultiscale footprints reveal the organization of cis-regulatory elements www.nature.com/articles/s41... ▶️Footprints of DNA–protein interactions from bulk & single-cell ATAC-seq ⤵️ ▶️Deep learning to infer transcription factor and nucleosome binding ▶️Age-associated reduction of nucleosome footprints
- Reposted by Axel DelamarreDo you have a new and exciting chromatin/transcription story that you'd like to share with an enthusiastic audience? If so, you should apply to give a talk in the 2025 Fragile Nucleosome seminar series: forms.gle/fwMYPFDf4az3...! We're open to scientists at all stages of their careers!
- Reposted by Axel DelamarreNew discovery from our #CDlab reported in Cell @cp-cell.bsky.social today: SMC motor proteins have a left-right ‘gearbox’ and can switch direction in DNA loop extrusion! www.sciencedirect.com/science/arti... 1/
- Reposted by Axel DelamarreFor my first post here at 🦋, let me tell you about a lovely paper by Richard Koche, @anton-henssen.bsky.social, and colleagues that covers how extrachromosomal DNA (ecDNA) drives cancer genome remodeling in neuroblastoma. It's a great story about cancer biology and genome organization! 🧬
