♨️Hot off the press, new study from our group: 🧬🤖 DNA language model for predicting mutation risk trained on massive genomic data sets A mutation seen again and again across cancer genomes looks like a causal change. But sometimes the DNA site is simply very easy to mutate & so generates a hotspot🔥

DNA mismatch repair (MMR) deficiency is an important driver of cancer genome instability. Yet it is usually treated as a binary label 0️⃣/1️⃣: MSI-high or not. Our new preprint -- fresh from the oven🔥 -- argues that this simple dichotomy obscures the underlying biology.

🔬 @fransupek.bsky.social ( @bric-ucph.bsky.social) - how #DNA repair defects drive cancer evolution 💻 Dr Syed Haider ( @icr.ac.uk ) - using large-scale cancer #genomics #data to uncover synthetic lethal interactions and identify new therapeutic vulnerabilities. More information 👉 buff.ly/JHRhnJi

📢📢 Job opening between the Bioinformatics Unit and my group (REPBIO) at @crg.eu Interested in contributing to our efforts to leverage long-read sequencing technologies for human genome research? Join us in Barcelona: recruitment.crg.eu/content/jobs... Please repost😊

✂️🧬preprint! "Quantitative prediction of nonsense-mediated #mRNA decay across human genes by #genomic language #model & large-scale mutational scanning" Fantastic teamwork by @IgnasiToledano 👨‍🔬and @MarcellVeiner👨‍💻. We combine massive experiment and sequence AI to elucidate NMD👇

On the heels of the release of #AlphaGenome, we have written up a review on 🧬genomic language models for DNA/RNA, out in EMBO @molsystbiol.org journal 🔖"The DNA dialect: a comprehensive guide to pretrained genomic language models" by Marcell Veiner👏 & yours truly👇 link.springer.com/article/10.1...

We also have a PhD student position open. Application deadline 10.2. 👇 candidate.hr-manager.net/ApplicationI...

PhD fellowship in AI for Single-Cell Disease Genomics at the Supek Group, BRIC

We are offering a PhD fellowship in AI for Single-Cell Disease Genomics commencing 1 May 2026, or soon thereafter (flexible start date). The PhD project is part

candidate.hr-manager.net

Fran Supek@fransupek.bsky.social · 7mo ago

We're recruiting 2 postdocs👩‍💻👨‍🏫 on the "A-SOuRCCE" project: 1️⃣AI for Knowledge Graphs in Regulatory Genomics (auto extraction, organization and querying of knowledge) 2️⃣Agentic AI for Scientific Discovery in Genomics (LLMs for hypothesis generation and assessment) Apply below! 👇 Deadline soon: 10.2.

We're recruiting 2 postdocs👩‍💻👨‍🏫 on the "A-SOuRCCE" project: 1️⃣AI for Knowledge Graphs in Regulatory Genomics (auto extraction, organization and querying of knowledge) 2️⃣Agentic AI for Scientific Discovery in Genomics (LLMs for hypothesis generation and assessment) Apply below! 👇 Deadline soon: 10.2.

Fran Supek@fransupek.bsky.social · 7mo ago

Delighted to share that our project on agentic AI for genomic science has been funded!🌟 We secured 1.7M € from @novo-nordisk.bsky.social in “Data Science Investigator: Distinguished” - v grateful!🙏 A-SOuRCCE stands for "AI for Single-cell Omics and Reproducible Cardiometabolic & Cancer Exploration"

Delighted to share that our project on agentic AI for genomic science has been funded!🌟 We secured 1.7M € from @novo-nordisk.bsky.social in “Data Science Investigator: Distinguished” - v grateful!🙏 A-SOuRCCE stands for "AI for Single-cell Omics and Reproducible Cardiometabolic & Cancer Exploration"

📢new study @genomedatalab.bsky.social When a cell divides, it copies 3 billion DNA letters. How does it know where to begin? ⁉️For years, the field debated if replication initiation was random or strict 📜Our preprint uses AI + mutation signatures to show it’s a precise, two-part system

Excited to share our latest collaborative study of a frontier approach in cancer immunotherapy, targeting the Nonsense-Mediated mRNA Decay (NMD) pathway. Read more in a short 🧵+ link to preprint is below:

📣 Attention postdocs in the life sciences! Are you ready to take the big leap? Start your lab at the Biotech Research and Innovation Centre in Copenhagen! 🇩🇰 @bric-ucph.bsky.social Collegial atmosphere, cutting-edge science, core funding. (+the weather is wonderful, relative to Siberia😁) Apply!👇

Congrats to colleagues from IRB!

IRB Barcelona@irbbarcelona.org · 9mo ago

Congrats Drs. Batlle, Supek, Zorzano, Orozco, López Bigas, A. González, Wculek, Nebreda, Salvatella, Palacín & Gabaldon, all among the world’s most cited in the World’s Top 2% Scientists in Stanford University–Elsevier list!. Drs. C. González & Aloy among the most cited scientists in their careers!🙌

🛑Guille's @guillepalou.bsky.social no-nonsense 😉 paper is out in @springernature.com Genome Biology! We report variable activity of the NMD pathway (mRNA QC) across tissues & individuals: 🧠less active in the nervous system & in reproductive tissues 🩸more active in digestive tract, muscle, blood

Fantastic to be in such great company!🤩 👏Congrats to 19 colleagues from my institutions (🇩🇰BRIC @UCPH_health and 🇪🇸@IRBBarcelona) in this year's Elsevier/Stanford top 2% most cited researchers list

Thanks to organizers for inviting!

Sociedad Española de Bioquímica y Biología Molecular (SEBBM)@sebbm.bsky.social · 11mo ago

S2.2. DNA break repair in the CRISPR era @EMBO  📢 Using combinatorial CRISPR/Cas12 edits and mutational signatures to study genetic interactions in DNA repair pathways - Fran Supek @FranSupek  #47congresosebbm

🧬New approach to decoding mutational signatures improves prediction of prognosis in #OvarianCancer. 📰 #GenomeMedicine ✍️ Patricia Ferrer-T Iván Galván-F & @fransupek.bsky.social ➡️ bit.ly/4nA579b 📌DOI: 10.1186/s13073-025-01497-7 @genomedatalab.bsky.social @bric-ucph.bsky.social 🧪

Congrats to our CRISPy fresh doctor 👏👏 Marcel McCullough for successfully defending his PhD thesis: 🧬✂️"Combinatorial Gene Editing in Human Cells to Model Deficiencies of DNA Repair in Cancer" Thx to committee members Julian Ceron, Laura Valle and David Szuts for a great discussion!

Join us at BRIC/FinsenLab -- start your group at the University of Copenhagen!

Bo Porse@porsebo.bsky.social · last yr.

WE ARE RECRUITING: A tenure-track group leader position in translational cancer research is available at the Finsen Laboratory in Copenhagen. Come join an excellent and friendly research environment combining both hospital and university affiliated groups candidate.hr-manager.net/ApplicationI...

🧵 Ahmed’s @genomedatalab.bsky.social paper on evolution of chemotherapy resistance is out @natcomms.nature.com! We developed DiffInvex - a method tracking how #cancer driver genes change under therapy using ~10k whole-genomes. Key insight: drug resistance often emerges through existing pathways 1/5

Great news – we received funding from the Independent Research Fund Denmark (DFF)! 🧬We will study #cancer driver mutations in tumor suppressor genes. In particular, we will focus on so-called "dominant negative" mutations, by combining #genomics, #AI & CRISPR gene editing.