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Jeroen van den Berg

@jervdberg.bsky.social
602 followers 304 following 21 posts

post-doc with Alexander van Oudenaarden @hubrecht | PhD with René Medema @NKI | Canman lab @ Columbia NYC | single cell sequencing | scEdU-seq| DNA replication | CRISPR | Genomic instability & Cell Fate | he/him

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Reposted by Jeroen van den Berg
Lopes_Lab @lopeslab.bsky.social · 25/09/2026
Working with a great team to organize @keystoneSymposia.bsky.social DNA Replication: Pathway Crosstalk Shaping Physiology and Disease, this April! Join us to explore emerging research in London! keysym.us/KSDNA27 #KSDNA27
keysym.us
DNA Replication: Pathway Crosstalk Shaping Physiology and Disease | Keystone Symposia
Join us at the Keystone Symposia on DNA Replication: Pathway Crosstalk Shaping Physiology and Disease, April 2027, in London, with field leaders!
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Luijsterburglab @luijsterburglab.bsky.social · 12/02/2026
Our great collaboration with the lab of Wei Yang and Kaoru Sugasawa is now online in Nature. We’re glad we could contribute some cell biology to complement this beautiful structural and biochemical work. www.nature.com/articles/s41...
nature.com
Pre-incision structures reveal principles of DNA nucleotide excision repair - Nature
Cryo-electron microscopy structures of nucleotide excision repair complexes reveal the roles of the constituent proteins XPA, XPB, XPC, XPD, XPF, XPG and RPA in DNA bubble formation and excision ...
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Luijsterburglab @luijsterburglab.bsky.social · 15/01/2026
Excited to share our new Nature study! 🧬 We (sidrituruci.bsky.social et al) discovered that CFAP20 helps clear stalled RNAPII, preventing harmful clashes with DNA replication machinery. This protects cells from R-loops and genome instability. Full paper: www.nature.com/articles/s41...
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Sandra Segura-Bayona @ssegurabayona.bsky.social · 07/10/2025
🧬 Preprint alert! "Distinct ATRX functions cooperate with 9-1-1 and CST complexes to safeguard replication and telomere integrity." Read the manuscript here 👉 www.biorxiv.org/content/10.1...
biorxiv.org
Distinct ATRX functions cooperate with 9-1-1 and CST complexes to safeguard replication and telomere integrity
Mutations in the ATRX chromatin remodeller predispose to a developmental genetic disorder and cancer, but how it safeguards genome and telomere stability remains unresolved. Here, we uncover critical ...
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The EMBO Journal @embojournal.org · 07/10/2025
New method paper: Bennie Lemmens et al @scilifelab.se describe 3D-SPARK, a super-resolution microscopy method that maps changes in DNA replication nanostructures in response to genetic perturbations or drugs, linking spatial cell biology with DNA synthesis dynamics www.embopress.org/doi/full/10....
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Jacqueline Jacobs @jacqjacobs.bsky.social · 06/10/2025
Are you a postdoc looking for a new challenge and do you match the profile? Apply to join us! Especially, if you have experience with addressing the mechanisms underlying telomere maintenance, DNA replication or DNA repair. www.werkenbijavl.nl/vacatures/po...
werkenbijavl.nl
Postdoc - Telomere and Genome Maintenance | Werken bij AVL
The research group of Jacqueline Jacobs at the division of Oncogenomics aims to identify new factors and molecular mechanisms that are critical in telomere and genome maintenance through appropriate D...
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Scaffidi Lab @scaffidilab.bsky.social · 30/09/2025
Histone acetylation - not always about transcriptional activation: H4K16ac safeguards the genome replication program by repressing premature replication of heterochromatin. Well done Marta Milan! tinyurl.com/yuy9m8t3
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Nature Methods @natmethods.nature.com · 26/09/2025
scEpi2-seq: a method for simultaneous single-cell profiling of DNA methylation and histone modifications. @jervdberg.bsky.social @hubrechtinstitute.bsky.social www.nature.com/articles/s41...
nature.com
Single-cell multi-omic detection of DNA methylation and histone modifications reconstructs the dynamics of epigenomic maintenance - Nature Methods
This work presents scEpi2-seq, a method for simultaneous single-cell profiling of DNA methylation and histone modifications, enabling direct investigation of the interplay between these two epigenomic marks.
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Hubrecht Institute @hubrechtinstitute.bsky.social · 25/09/2025
🧬 Hubrecht researchers have developed a method that can detect DNA methylation and histone modifications simultaneously in single cells. They can now for the first time study how their interaction influences gene activity. www.nature.com/articles/s41592-025-…  @jervdberg.bsky.social
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Jeroen van den Berg @jervdberg.bsky.social · 25/09/2025
New method 🚀: scEpi2-seq lets us read DNA methylation+histone marks in the same single cell. Found that methylation “memory” after replication depends on chromatin+histones, and TF promoters repressed by H3K27me3 carry distinct methylation. So stoked to share this as first+co-corresponding author 🎉
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Francesca Mattiroli @fmattiroli.bsky.social · 21/09/2025
The latest work from ours and @vram142.bsky.social lab is out! True teamwork to visualize nascent chromatin with strand resolution, using a fully reconstituted system. Very proud of superstar-PhD student Bruna, and @palindromephd.bsky.social. Learning so much from Vijay’s amazing technologies! RT
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Francesca Mattiroli @fmattiroli.bsky.social · 21/09/2025
Teamwork at its best!! Thank you Vijay, for sharing your technologies and computational talent, for the fun discussions and work together, at random hours of the day or night 😃
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Jeroen van den Berg @jervdberg.bsky.social · 22/09/2025
such a tour de force! great stuff, drop eveything and first read this, you wont be disappointed! congrats to all authors @vram142.bsky.social @fmattiroli.bsky.social
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Vijay Ramani @vram142.bsky.social · 20/09/2025
Some (+)ve news to lighten another heavy weekend: our latest preprint (c/o Mattiroli + Ramani labs) is up! www.biorxiv.org/content/10.1... A tour-de-force by 1st authors Bruna Eckhardt & @palindromephd.bsky.social, focusing on chromatin replication. RTs welcome; tweetorial in 3,2...(1/n)
biorxiv.org
The eukaryotic replisome intrinsically generates asymmetric daughter chromatin fibers
DNA replication is molecularly asymmetric, due to distinct mechanisms for lagging and leading strand DNA synthesis. Whether chromatin assembly on newly replicated strands is also asymmetric remains un...
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The Groth lab @grothlab.bsky.social · 28/08/2025
We have lift off!! 🚀 Yesterday was the official opening of EpiC! The DNRF Center for Epigenetic Cell Memory at the Danish Cancer Institute! Our EpiC team with director Anja Groth @groth-anja.bsky.social, were joined by Jesper Fisker, CEO @cancer.dk & Niels Mejlgaar, CEO @dg.dk to celebrate 🎉
Image of Niels Mejlgaar (CEO of DNRF), Anja Groth (EpiC director) & Jesper Fisker (CEO of DCS).
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Daniel Durocher @durocher1.bsky.social · 28/08/2025
JOB ALERT 🚨 We are hiring TWO principal investigators in cell, molecular, systems, or chemical biology in Toronto, Canada at @sinaihealth.bsky.social. We provide a generous startup, fully funded salary and academic appointment at U of Toronto. www.nature.com/naturecareer... Please repost!
Image of Toronto
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Jacqueline Jacobs @jacqjacobs.bsky.social · 15/08/2025
Aspiring PhD students, this is your chance to join us at the NKI to work on genomic instability and telomeres!: www.werkenbijavl.nl/vacatures/ph...
werkenbijavl.nl
PhD student to study the mechanisms and therapeutic potential of genomic instability
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AmélieFT@AFTLab @amelieft.bsky.social · 13/08/2025
I am very excited to share the newest paper of the lab, a huge amount of work led by our talented PhD student Maxime Galloy, in close collaboration with Andréanne Blondeau, our dedicated research assistant for 10 years! 🙌 www.cell.com/molecular-ce...
cell.com
Ubiquitination of the histone variant mH2A1.2 prevents toxic RAD18 accumulation at a subset of genomic loci upon replication stress
Using biochemical assays and a mutant disrupting RNF168-dependent ubiquitination of the histone variant macroH2A1.2, Galloy et al. identified an unexpected role for histone mH2A1.2 ubiquitination in p...
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Abdel Mazouzi @amazouzi.bsky.social · 13/08/2025
I am thrilled to share with you my first co-corresponding author Nature paper with Jos Jonkers. This project was led by the extraordinary @sarahmoser.bsky.social . Congratulations, and thank you to all the authors, @nkinl.bsky.social , and @oncodeinstitute.bsky.social for their support.
nature.com
NASP modulates histone turnover to drive PARP inhibitor resistance - Nature
PARP inhibitor treatment triggers histone release from the chromatin in cancer cells; consequently, targeting the histone chaperone NASP renders cells vulnerable to PARP inhibition.
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Sarah Moser @sarahmoser.bsky.social · 13/08/2025
Thrilled to share our latest work, just published in @nature.com ⬇ www.nature.com/articles/s41... We discovered that PARP inhibitors 💊 trigger histone eviction from the chromatin and this creates a hidden vulnerability in PARPi resistant tumors. 🧵 (1/8)
nature.com
NASP modulates histone turnover to drive PARP inhibitor resistance - Nature
PARP inhibitor treatment triggers histone release from the chromatin in cancer cells; consequently, targeting the histone chaperone NASP renders cells vulnerable to PARP inhibition.
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Robert Hänsel-Hertsch @epistrucstab.bsky.social · 28/07/2025
🧪Move over CUT&Tag, there’s a new #TranscriptionFactor mapping method in town. Our newly developed DynaTag is faster, cleaner, more sensitive than #ChIPseq, #CUT&RUN and #CUT&Tag. 🔗 Our @natcomms.nature.com paper: www.nature.com/articles/s41... 🧵Let’s break down what makes DynaTag so powerful (1/7)
Image credit: @gloglita.bsky.social‬ @lifescienceeditors.bsky.social‬ captured DynaTag in action: a pA-Tn5 probe (multicoloured) binds an antibody (white), which binds p53 DNA-binding domain (green) on DNA (blue) within 2 nucleosomes
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Alessandro Costa @costalaboratory.bsky.social · 21/07/2025
Less than two weeks left to apply! Postdoc positions in my lab to study 1. initiation of DNA replication. 2. chromatin replication/epigenetic inheritance. Great for biochemists, biophysicists & structural biologists. Deadline 3 August 2025. crick.wd3.myworkdayjobs.com/External/job...
crick.wd3.myworkdayjobs.com
Postdoctoral Fellow - Costa Lab
Salary for this Role: From £45,500 with benefits, subject to skills and experience. Job Title: Postdoctoral Fellow - Costa Lab Reports to: Alessandro Costa Closing Date: 03/Aug/2025 23.59 GMT Job Desc...
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Luijsterburglab @luijsterburglab.bsky.social · 19/07/2025
Very proud of this international collaborative team effort published in EJHG defining ERCC1-hepatorenal syndrome as a severe multisystem DNA repair disorder with high mortality and pediatric liver cancer risk. Thanks to all families and collaborators. www.nature.com/articles/s41...
nature.com
A new multisystem ERCC1-hepatorenal syndrome: insights from a clinical cohort, molecular pathogenesis, and management guidelines - European Journal of Human Genetics
European Journal of Human Genetics - A new multisystem ERCC1-hepatorenal syndrome: insights from a clinical cohort, molecular pathogenesis, and management guidelines
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Janet Iwasa @jiwasa.bsky.social · 02/07/2025
Check out this new review (with animations, natch) of mechanisms of licensing origins of DNA replication - a wonderful (and continuing!) collaboration with Bruce Stillman @cshlnews.bsky.social and John Diffley @crick.ac.uk! www.nature.com/articles/s41...
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nussenza.bsky.social @nussenza.bsky.social · 25/06/2025
Cytarabine has been the mainstay for AML treatment for over 50 years. This chemotherapy can lead to problems with movement and balance. Here we explain this neurotoxic side-effect. www.nature.com/articles/s41... Work led by Jia-Cheng Liu, Donpeng Wang and Elsa Callen and terrific collaborators!
nature.com
Mechanism of cytarabine-induced neurotoxicity - Nature
Certain antimetabolites used to treat cancer are more neurotoxic than others, and it is now shown that this is due to their greater tendency to generate DNA double-stranded breaks, whereas less n...
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Andrew Blackford @andrewblackford.bsky.social · 29/05/2025
We’re #hiring, please share! A fully funded #postdoc position is available in my lab to work on DNA damage response mechanisms. Please get in touch with your CV if you are interested; closing date: 27th June 2025. More details here: candidate.hr-manager.net/ApplicationI...
candidate.hr-manager.net
Postdoctoral Research Associate in the Blackford Group
A position as Postdoctoral Research Associate is available at the Department of Cellular and Molecular Medicine, in the group headed by Dr. Andrew Blackford. Th
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Francesca Mattiroli @fmattiroli.bsky.social · 13/06/2025
Big shoutout to this amazing work from our colleagues in the Knipscheer lab. Congratulations on discovering and dissecting yet another new molecular mechanism that keeps our genome safe! 👏🍾
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puckknipscheer.bsky.social @puckknipscheer.bsky.social · 13/06/2025
Excited our paper is out! G-quadruplex (G4) unwinding via an intricate G-loop assembly and disassembly mechanism maintains genome integrity. Pioneered by Koichi Sato with great collaborators Jing Lyu and @simonelsasser.bsky.social Check it out: www.science.org/doi/10.1126/science.adr0493 🧵(1/4)
science.org
RNA transcripts regulate G-quadruplex landscapes through G-loop formation
G-quadruplexes (G4s) are prevalent DNA structures that regulate transcription but also threaten genome stability. How G4 dynamics are controlled remains poorly understood. Here, we report that RNA tra...
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puckknipscheer.bsky.social @puckknipscheer.bsky.social · 13/06/2025
We found G4s are recognized as DNA lesions leading to homology-directed invasion of RNA opposite the G4 to form a G-loop structure. This G-loop initiates G4 unwinding by DHX36 and FANCJ. Subsequent nucleolytic incision followed by renewal of the RNA-containing strand drive G-loop disassembly (2/4)
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puckknipscheer.bsky.social @puckknipscheer.bsky.social · 13/06/2025
Inhibition of this mechanism causes global G4 and R-loop accumulation, leading to transcription dysregulation, replication stress, and genome instability. Thanks to cells from @joost84.bsky.social from the Tijsterman lab and amazing scEdUseq by @jervdberg.bsky.social from the Oudenaarden lab (3/4)
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Jeroen van den Berg @jervdberg.bsky.social · 13/06/2025
Congrats to Koichi Sato and @puckknipscheer.bsky.social on this beautiful paper! The biochemistry is 🤯 Happy to help with scEdUseq to pinpoint the DNA replication defects! 🎉🧬 RNA transcripts regulate G-quadruplex landscapes through G-loop formation | Science www.science.org/doi/10.1126/...
science.org
RNA transcripts regulate G-quadruplex landscapes through G-loop formation
G-quadruplexes (G4s) are prevalent DNA structures that regulate transcription but also threaten genome stability. How G4 dynamics are controlled remains poorly understood. Here, we report that RNA tra...
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The Downs Lab @thedownslab.bsky.social · 27/05/2025
New preprint from the lab on ARID1A, G quadruplexes, and repair: www.biorxiv.org/content/10.1...
biorxiv.org
ARID1A stabilises non-homologous end joining factors at DNA breaks induced by the G4 ligand pyridostatin
ARID1A is a subunit of the BAF chromatin remodelling complex that is frequently mutated in cancer. It is challenging to predict how ARID1A loss impacts cancer therapy response because it participates ...
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Andreas Panagopoulos @apanagopoulos.bsky.social · 21/05/2025
Delighted to share that the results of my main postdoc project are now published in @nature.com 🔗 doi.org/10.1038/s415...
doi.org
Multigenerational cell tracking of DNA replication and heritable DNA damage - Nature
A multigenerational single-cell tracking approach provides a framework to dissect phenotypic plasticity at the single-cell level, offering insights into cellular processes that may resemble early even...
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altmeyerlab @altmeyerlab.bsky.social · 21/05/2025
Sharing our latest work tracking DNA damage inheritance by Live+QIBC www.nature.com/articles/s41.... Huge congrats to @apanagopoulos.bsky.social, M. Stout and all co-authors for this tour de force! Beautifully summarized by @s-j-aitken.bsky.social & E. Reilly www.nature.com/articles/d41...
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The Groth lab @grothlab.bsky.social · 20/05/2025
🚨 Postdoc wanted (🇳🇱NL based) for our exciting collaboration with the lab of Alexander van Oudenaarden @hubrechtinstitute.bsky.social in Utrecht, with collaborative visits to our lab Copenhagen 🇩🇰. We seek a computational scientist to model epigenetic inheritance, see more below 👇!
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Sebastiaan van Heesch @sebastiaanvheesch.bsky.social · 16/05/2025
### PhD position alert ### Please repost! I'm excited to announce a new *PhD position* within our group. We are looking for a super-motivated candidate with a solid basis in wet- and dry-lab research. Apply now & make sure to include all docs! werkenbijprinsesmaximacentrum.nl/en/vacancy/p...
werkenbijprinsesmaximacentrum.nl
PhD Position: Unraveling the Dark Proteome in Pediatric Cancer - Werken bij Prinses Maxima Centrum
Background For decades, vast stretches of the genome were dismissed as non-functional ‘junk’. However, our group and others have revealed that these regions harbor numerous non-canonical open reading ...
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Jeroen van den Berg @jervdberg.bsky.social · 16/05/2025
🧬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
shorturl.at
Postdoctoral Researcher - Computational modeling of Epigenetic Inheritance - 38 hours p/w - Hubrecht Institute
About the Project Faithful inheritance of the epigenome in proliferating cells critically underpins human development and health. While DNA replication fidelity and DNA mutation rates are well underst...
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Deegan Lab @deeganlab.bsky.social · 15/04/2025
3rd edition of the fantastic UK DNA replication meeting is happening next September in Edinburgh. Don't miss out 🧬🏴󠁧󠁢󠁳󠁣󠁴󠁿 www.biochemistry.org/events-and-t...
biochemistry.org
UK DNA Replication Meeting 2026
Research in the DNA replication field is progressing at a remarkable rate. Technological innovations in biochemical reconstitution, structural biology, proteomics and DNA sequencing are helping to rap...
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Lucas Farnung @lucas.farnunglab.com · 06/04/2025
🔬 New from the Farnung Lab: We established a fully in vitro reconstituted chromatin replication system and report the first cryo-EM snapshots of the human replisome engaging nucleosomes. Brilliant work by @felixsteinruecke.bsky.social with support from @jonmarkert.bsky.social! tinyurl.com/replisome
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Nature Methods @natmethods.nature.com · 28/03/2025
Paired-Damage-seq is an in situ labeling-by-repair strategy for joint profiling of oxidative and ssDNA damage alongside gene expression, in single cells. www.nature.com/articles/s41...
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Anja Groth @groth-anja.bsky.social · 28/03/2025
A few days left to apply for exciting PhD and Postdoc opportunities in wonderful Copenhagen and join our efforts in understanding Epigenetic Cell Memory.
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Claudio Cantù @claudiocantu81.bsky.social · 27/03/2025
It is a big honor to be part of @scilifelab.se and @kawresearch.bsky.social I and my group - I promise - we'll do our best to be up to this priviledge and responsibility Please visit our growing @liu.se 👉Visit us in person - Linköping is such a wonderful place! liu.se/nyhet/nya-sc...
liu.se
Nya SciLifeLab Group Leaders vid LiU
Under februari 2025 godkände SciLifeLabs styrelse över tvåhundra SciLifeLab Group Leaders, flera arbetar vid BKV, HMV och IFM.
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Jeroen van den Berg @jervdberg.bsky.social · 21/03/2025
@sentimentbot.bsky.social
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Jeroen van den Berg @jervdberg.bsky.social · 20/03/2025
Great work! 💯 Congrats @ksomyajit.bsky.social 🎉
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Kumar Somyajit & Lab @ksomyajit.bsky.social · 20/03/2025
Thrilled to share our lab's first preprint, led by an exceptional PhD student Gita Chhetri and with the support of wonderful collaborators, we find that replisome function is rate-limited by strand-specific PCNA dynamics. Hope you will enjoy reading. www.biorxiv.org/content/10.1... Brief teaser:
biorxiv.org
PAF15-PCNA assembly exhaustion governs lagging strand replication and replisome integrity
Genome replication in eukaryotic cells is surveyed by the S-phase checkpoint, which orchestrates sequential replication origin activation to avoid exhaustion of hitherto poorly defined rate-limiting r...
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marcelvanvugt.bsky.social @marcelvanvugt.bsky.social · 18/03/2025
Thanks to the many collaborators; the labs of Thijn Brummelkamp, Alexander van Oudenaarden, Steven de Jong, Frank Sicheri, Marvin Tanenbaum @marvintanenbaum.bsky.social @jervdberg.bsky.social @rinskjetjeerdsma.bsky.social @mauritsroorda.bsky.social @daaninthelab.bsky.social
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marcelvanvugt.bsky.social @marcelvanvugt.bsky.social · 18/03/2025
Happy to post a new study on BioRxiv, where we show Integrated Stress Response activation as an off-target effect of multiple clinically evaluated WEE1 inhibitors. Team effort with the lab of Dan Durocher @durocher1.bsky.social and many others. www.biorxiv.org/content/10.1...
biorxiv.org
WEE1 inhibitors trigger GCN2-mediated activation of the integrated stress response
The WEE1 kinase negatively regulates CDK1/2 to control DNA replication and mitotic entry. Genetic factors that determine sensitivity to WEE1 inhibitors (WEE1i) are largely unknown. A genome-wide inser...
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The Groth lab @grothlab.bsky.social · 06/03/2025
𝐍𝐞𝐰 𝐦𝐞𝐜𝐡𝐚𝐧𝐢𝐬𝐭𝐢𝐜 𝐢𝐧𝐬𝐢𝐠𝐡𝐭𝐬 𝐢𝐧𝐭𝐨 𝐭𝐡𝐞 𝐫𝐞𝐠𝐮𝐥𝐚𝐭𝐢𝐨𝐧 𝐨𝐟 𝐡𝐢𝐬𝐭𝐨𝐧𝐞 𝐬𝐮𝐩𝐩𝐥𝐲! Excited to share our latest collaboration led by tkjeong.bsky.social and ciaranfrater.bsky.social! Structural determination of the histone chaperone ASF1 and its regulator CODANIN-1 uncovers how CODANIN-1 counters ASF1 activity. 🧵👇
rdcu.be
CODANIN-1 sequesters ASF1 by using a histone H3 mimic helix to regulate the histone supply
Nature Communications - CODANIN-1 negatively regulates the function of ASF1, the key chaperone for histone H3-H4 supply. Here the authors present the cryo-EM structure of the CODANIN-1_ASF1A...
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Dirk Remus @dirkremus.bsky.social · 06/03/2025
How 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!
science.org
G-quadruplex–stalled eukaryotic replisome structure reveals helical inchworm DNA translocation
DNA G-quadruplexes (G4s) are non–B-form DNA secondary structures that threaten genome stability by impeding DNA replication. To elucidate how G4s induce replication fork arrest, we characterized fork ...
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Balthasar Heesters @heesters.gitlab.io · 03/03/2025
We have an exciting postdoc position for 3-years! www.uu.nl/en/organisat... Apply or sent me a message if you have any questions. Work @uuuips.bsky.social with wonderful colleagues such as @luckrimp.bsky.social and others without bluesky ;) More information: heesters.gitlab.io/postdoc_hire/
uu.nl
Postdoc to investigate Follicular Dendritic Cell (FDC) Stimulation
Join our team to unravel the complex effects of PRR stimulation on FDC functionality and its consequences for FDC interactions with immune cells in the GC.
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