Teif lab @teiflab.bsky.social · 23/09/2026Zeng et al, 2026. Transcription factors read a second regulatory code in chromatin www.biorxiv.org/content/10.6... "our findings establish that TFs interpret two complementary layers of genomic information: the primary DNA sequence and a second code written into the nucleosome architecture" 1278
Teif lab @teiflab.bsky.social · 30/08/2026AlBawardi et al, 2026. Irregular nucleosome positioning governs a crystalline to liquid-like phase transition and tunes chromatin accessibility www.biorxiv.org/content/10.6... ▶️heterochromatin-like sequences produce compact fibres ▶️positional irregularity (>2-3 bp) triggers a state transition 0197
Teif lab @teiflab.bsky.social · 18/08/2026Luo et al, 2026 (review). The roles of chromatin remodeling and 3D genome organization in cancers: from mechanistic insights to emerging treatment options link.springer.com/article/10.1... 🤯548 references! 081
Teif lab @teiflab.bsky.social · 14/08/2026Our new facility www.essex.ac.uk/news/2026/08...essex.ac.ukNew lab will train NHS cancer scientists of the future | University of Essex 020
Teif lab @teiflab.bsky.social · 26/07/2026Woolfe et al, 2026. Decoding the mystery of ultra-conservation in developmental enhancers: a role for nucleosome positioning, DNA structure and transcription factor binding www.biorxiv.org/content/10.6... ▶️conserved non-coding elements ... favor nucleosome occupancy at their borders 13412
Teif lab @teiflab.bsky.social · 17/07/2026Molecular Acrobats: How CHD Remodelers Shape the Genetic Playground to License Cell Identity [review by İsa Özdemir and Sarah Hainer] onlinelibrary.wiley.com/doi/10.1002/...onlinelibrary.wiley.comMolecular Acrobats: How CHD Remodelers Shape the Genetic Playground to License Cell IdentityIn eukaryotes, DNA is not a naked repository of genetic information but is tightly wound around histone octamers to form nucleosomes. While this packaging solves the spatial problem of fitting 2 mete... 020
Teif lab @teiflab.bsky.social · 12/07/2026Tran et al, 2026. Deconvolving the spatiotemporal chromatin landscape through the cell cycle www.biorxiv.org/content/10.6... ▶️Nucleosome atlas using MNase-seq from synchronized yeast populations at 10-minute intervals through the cell cyclebiorxiv.org 050
Teif lab @teiflab.bsky.social · 10/07/2026Yesterday I gave a webinar for Year 12 students titled “Genomics meets AI: can we detect cancer earlier?” Alongside the science, I found a few useful ways to explain gene regulation to people without a biology background. Sharing in case useful to others. 1/4 240
Teif lab @teiflab.bsky.social · 07/07/2026Chen et al 2026. Genome-wide rotational and translational phasing of nucleosomes with human transcription factors www.cell.com/molecular-ce... ▶️ In vivo nucleosome phasing measured on the same TF-bound DNA molecule ▶️ Phasing around CTCF sites is DNA encoded ▶️ FoxA and NFIA phase adjacent nucleosomes 0155
Teif lab @teiflab.bsky.social · 05/07/2026Gaspa-Toneu et al, 2026. Single molecule footprinting measures low nucleosome occupancy in mature spermatozoa of mice and men www.biorxiv.org/content/10.6... ▶️ NOMe-seq at 103 and 163 genomic sites in spermatozoa of mice and human ▶️ nucleosome occupancy ∼1.2 to 1.7% in mice; ∼2.3 to 4.5% in humanbiorxiv.orgSingle molecule footprinting measures low nucleosome occupancy in mature spermatozoa of mice and menNucleosomes are fundamental units of DNA packaging and gene regulation in eukaryotes. In mammalian sperm, most nucleosomes are replaced by protamines causing extreme chromatin compaction. Various epig... 030
Teif lab @teiflab.bsky.social · 03/07/2026A good use of AI in text editing is interactive: it highlights issues, you try different approaches, it disagrees, you push back, and the two of you have a dialogue much as you would with a human coauthor. A refined text emerges iteratively, and you learn from the process. The process itself matters 280
Teif lab @teiflab.bsky.social · 03/07/2026Sounds like an excellent idea www.bbc.co.uk/news/article...bbc.co.ukNHS to reward people who walk 30 minutes a dayThe "marathon a month" scheme, developed with former Olympic medallist Sir Brendan Foster, will launch early next year. 010
Teif lab @teiflab.bsky.social · 28/06/20261/9 A few thoughts and personal opinions on the use of AI in research evaluation. I suspect many of these changes may be inevitable, so the real question may not be whether this will happen, but how we shape it responsibly 🧵 2124
Reposted by Teif labJeffrey Ross-Ibarra @jrossibarra.bsky.social · 26/06/2026After reading @blekhernia.bsky.social's great blog post on lab AI usage policy (blekhman.substack.com/p/you-need-t...), we made one in lab meeting. Feedback welcome! rilab.ucdavis.edu/ai_expectati...rilab.ucdavis.eduRoss-Ibarra Lab Policy on AI Usage 45124
Teif lab @teiflab.bsky.social · 21/06/2026Deskilling associated with AI is a real danger for our students as well. How to prevent it? Which tricks do you use to integrate AI in training responsibly? 100
Teif lab @teiflab.bsky.social · 12/06/2026Great preprint by @vram142.bsky.social & Co www.biorxiv.org/content/10.6... "fiber homotypy," where chromatin fibers with similar nucleosome spacing interact more frequently in 3D --> Related to our previous "nucleosome homology recognition" in chromatin royalsocietypublishing.org/rsif/article... 0165
Teif lab @teiflab.bsky.social · 10/06/2026Come celebrate Professor Leo Schalkwyk with us! We’re holding a one-day symposium to mark Leo's remarkable career and many contributions to genomics. 📆26 June 2026 📍University of Essex, Colchester Details and registration: schalkwykfest.essex.ac.uk There will be a BBQ as well! 252
Teif lab @teiflab.bsky.social · 04/06/2026Sun et al, 2026. NuRD-enabled CTCF-TET crosstalk orchestrates epigenome reprogramming and genome architecture www.cell.com/molecular-ce... 084
Teif lab @teiflab.bsky.social · 15/05/2026The +1 nucleosome functions in Pol II transcription initiation and the transition to elongation www.biorxiv.org/content/10.6... [Yumeng Zhan, Julio Abril-Garrido, Frauke Grabbe, Paulina Seweryn, Ute Neef, Christian Dienemann, Patrick Cramer] 051
Reposted by Teif labAlexis Verger 🧬🧫🧪 @alexis-verger.cpesr.fr · 08/05/2026 Did you know that Pierre Chambon's laboratory was the first to use the term "nucleosome" in 1975 ? www.cell.com/cell/fulltex... 17630
Teif lab @teiflab.bsky.social · 11/03/2026Tested LinkedIn for a paper announcement, and it worked perfectly. About 3x more engagements than on Bluesky. Obviously, LinkedIn is a different culture, more formal and less chatty, but for professional things it works just fine. Can't believe it was there all the time, and we just did not use it 360
Teif lab @teiflab.bsky.social · 09/03/2026Adhireksan et al, 2026. Linker histones consolidate heterogenous nucleosome fiber contacts by linking together multiple nucleosomes www.nature.com/articles/s41... 093
Teif lab @teiflab.bsky.social · 05/03/2026Nucleosome aficionados! Our new review "Nucleosome spacing across cell types, diseases, and ages" is out in NAR: academic.oup.com/nar/article/... A huge effort to pull together what we’ve learned about nucleosome spacing in many systems. Enjoy! @milena-bikova.bsky.social @chrsclrksn.bsky.social 05020
Reposted by Teif labEric Topol @erictopol.bsky.social · 20/02/2026142,000 participants! The largest randomized trial of a multi-cancer early detection (MCED) test failed its primary endpoint genomeweb.com/cancer/grail... Had the enrollment been risk-based instead of age 50, it would likely have been very positive. 713629
Teif lab @teiflab.bsky.social · 08/02/2026Preparing a lecture about cancer genomics. Looking for a 3D map of human chromatin to show chromosomes 22 and 9 close to each other to demonstrate Philadelphia chromosome translocation. Chromosome territories like the one below don't show them together. Any other visualisations in this style? 241
Reposted by Teif labAaron Quinlan (he/him) @aaronquinlan.bsky.social · 02/12/2025We are thrilled to announce the first official release (v0.1.8) of #𝗯𝗲𝗱𝗱𝗲𝗿, the successor to one of our flagship tool, #𝗯𝗲𝗱𝘁𝗼𝗼𝗹𝘀! Based on ideas we conceived of long ago (!), this was achieved thanks to the dedication of Brent Pedersen. 1/nquinlanlab.orgIntro to Bedder – The Quinlan Lab 5298151
Teif lab @teiflab.bsky.social · 23/01/2026Looks like LinkedIn is becoming more active than bluesky in terms of paper announcements and engagements 140
Teif lab @teiflab.bsky.social · 21/01/2026Today we had very nice interactions in the University of North Dakota (remotely)! Thank you very much @adhasarathy.bsky.social, Motoki Takaku & Co for the invitation to give this talk and hosting the visit! 150
Reposted by Teif labLuca Giorgetti lab @FMI @lucagiorgetti.bsky.social · 20/01/2026Would anyone out there be able to share some Mus Spretus DNA with us? 🐀🧬 Any tissue of origin, for PCR amplification of selected genomic regions. Many thanks in advance! 1311
Reposted by Teif labHanneke Vlaming @hannekevlaming.bsky.social · 15/01/2026The Vlaming lab continues to grow! It's an exciting time in the Vlaming lab: we've just had our 2nd PhD student join, and the 3rd is joining in February. Now, we're looking to recruit a postdoc! 1159
Teif lab @teiflab.bsky.social · 14/01/2026Congratulations to Negin Behboodi on successfully passing your PhD viva! We are so proud of you! Keep an eye out for Negin's upcoming big papers! And thank you to the kind examiners @mspivakov.bsky.social and @amarcobio.bsky.social! 191
Teif lab @teiflab.bsky.social · 11/01/2026Schaepe et al, 2026. Thermodynamic principles link in vitro transcription factor affinities to single-molecule chromatin states in cells www.cell.com/cell/fulltex... 0168
Teif lab @teiflab.bsky.social · 07/01/2026Shin et al 2026. CTCF demarcates H3K9me2 or H3K9me3 chromatin domains and restricts the spreading of these modifications faseb.onlinelibrary.wiley.com/doi/abs/10.1... ▶️Related to our previous paper which showed that CTCF forms boundaries of H3K9me2/H3K9me3 nanodomains www.nature.com/articles/s41...faseb.onlinelibrary.wiley.comCTCF‐Binding Sites Demarcate Chromatin Domains Enriched With Histone H3K9me2 or H3K9me3 and Restrict the Spreading of These Modifications in Human CellsTo investigate the role of CTCF in chromatin domains enriched with histone H3K9me2 or H3K9me3, we analyzed the distribution of these modifications around CTCF-binding sites in human K562 cells. Genom... 060
Reposted by Teif labJill Moore @moorejille.bsky.social · 07/01/2026Our paper on the newest version of the Registry of candidate cis-Regulatory Elements (cCREs) is out 🧬 Huge thanks to the many collaborators, experimentalists, analysts and software developers who made this work possible — truly a team effort! A "meme-torial" of the science is coming soon 👀nature.comAn expanded registry of candidate cis-regulatory elements - NatureThe existing ENCODE registry of candidate human and mouse cis-regulatory elements is expanded with the addition of new ENCODE data, integrating new functional data as well as new cell and tissue types... 15731
Teif lab @teiflab.bsky.social · 07/01/2026Structural organization and function of telomeric chromatin [Review by Ruben van der Lugt & Jacqueline Jacobs] www.nature.com/articles/s41... 041
Teif lab @teiflab.bsky.social · 04/01/2026The famous "It takes two to think" by @itaiyanai.bsky.social and martinlercher.bsky.social (www.nature.com/articles/s41...) may have some ramifications in the era of AI :) 050
Reposted by Teif labFena Ochs @fenaochs.bsky.social · 02/01/2026We are looking for a Postdoc at the Center for Gene Expression in Copenhagen. Deadline for applications is the 11th of January. If you are interested in 3D chromatin, SMC complexes, and super-resolution microscopy, join us. www.nature.com/naturecareer...nature.comPostdocs at Center for Gene Expression in Department of Cellular and Molecular Medicine - Copenhagen, Hovedstaden (DK) job with University of Copenhagen | 12849488We are looking for 2 or more highly motivated postdocs interested in ribosome biology, 3D chromatin organisation, or regulation of protein turnove... 02225
Teif lab @teiflab.bsky.social · 29/12/2025As usual this time of year, started drafting the list of gene regulation conferences for 2026, enjoy! generegulation.org/conferences-... Know of a relevant event that’s missing? Please reply belowgeneregulation.orgConferences & Schools – 2026 – Gene Regulation – Teif Lab 104425
Reposted by Teif labKarsten Rippe @karsten-rippe.bsky.social · 24/12/20251/ 🎄 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. 37725
Reposted by Teif labJob Dekker @jobdekker.bsky.social · 17/12/2025A major output of the 4D Nucleome project appeared today. This is the joint effort of many scientists working together and (publicly) sharing data and results for several years. We hope this is of interest to many genome biologists! www.nature.com/articles/s41...nature.comAn integrated view of the structure and function of the human 4D nucleome - NatureThe 4D Nucleome Project demonstrates the use of genomic assays and computational methods to measure genome folding and then predict genomic structure from DNA sequence, facilitatin... 211055
Reposted by Teif labRosana Collepardo @rcollepardo.bsky.social · 05/12/2025Our Science paper is out! Huge congratulations to @huabin-zhou.bsky.social, Mike Rosen, and the brilliant @janhuemar.bsky.social @juliamaristany.bsky.social and @kieran-russell.bsky.social from our group News: bit.ly/4avnkAr and bit.ly/3XBGVHS Great perspective by @vram142.bsky.social +K Zhang 28941
Teif lab @teiflab.bsky.social · 04/12/2025Rudnizky et al., 2025. Ultrafast CTCF dynamics control cohesin barrier function www.biorxiv.org/content/10.1... 041
Reposted by Teif labMikhail Spivakov @mspivakov.bsky.social · 25/11/2025I'm guest-editing a collection on "Enhancer-promoter interactions" at Genome Biology. Please send us your exciting stories! link.springer.com/collections/...link.springer.comEnhancer-promoter interactionsGenome Biology is calling for submissions to our Collection on enhancer-promoter interactions. Enhancer–promoter interactions are central to the regulation ... 04732
Teif lab @teiflab.bsky.social · 24/11/2025Maansson et al., 2025. Liquid biopsy epigenetics: establishing a molecular profile based on cell-free DNA [review] febs.onlinelibrary.wiley.com/doi/full/10.... 041
Teif lab @teiflab.bsky.social · 24/11/2025Some refs on nucleosome-mediated cooperativity in TF binding: ▶️Concept suggested by Polach & Widom, 1996: www.sciencedirect.com/science/arti... ▶️Our first single-bp resolution model, 2010: www.cell.com/biophysj/ful... ▶️Its application to TFs at enhancers, 2011: iopscience.iop.org/article/10.1... 180
Reposted by Teif labZeitlinger Lab @zeitlingerlab.bsky.social · 19/11/2025We are pleased to announce a new preprint by @mlweilert.bsky.social: “Widespread low-affinity motifs enhance chromatin accessibility and regulatory potential in mESCs” (www.biorxiv.org/content/10.1...). See summary and longer recap below: (TLDR; low-affinity motifs matter as pioneers!)biorxiv.orgWidespread low-affinity motifs enhance chromatin accessibility and regulatory potential in mESCsLow-affinity transcription factor (TF) motifs are an important element of the cis-regulatory code, yet they are notoriously difficult to map and mechanistically incompletely understood, limiting our a... 16928