Genome Data Science lab
@GenomeDataLab
Computational biology @UCPH_Research/@IRBBarcelona: genetics & evolution of tumors & human populations. #ERC, #HorizonEU, #NNF, #DCS, #DFF funded. PI @FranSupek
🤖The @GenomeDataLab develops #ArtificialIntelligence (#AI) models to predict epigenetic disturbances that result from inherited mutations. Their aim is to better predict how heritable and epigenetic changes jointly shape the risk of developing #LungCancer in every individual.
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 @CeronLab @LValleResearch and @DSzuts for great discussion!
Very cool collaborative work of our lab w/group of Lluis Ribas at @IRBBarcelona, spearheaded by the 2 Marinas 😀Marina Murillo and our alumna @msalvadoresf
In this fascinating preprint, the authors uncover an eye-opening feature of tRNA genes: they’re insanely prone to mutation. Analyzing somatic mutations in cancer tissues, they report that tRNA genes are up to 9 times more mutated than protein-coding genes. Interestingly, the…
🧵Ahmed’s @GenomeDataLab paper on evolution of chemotherapy resistance is out in @NatureComms! We developed DiffInvex - a method tracking how #cancer driver genes change under therapy, applied to ~10k genomes. Key insight: resistance often emerges through existing pathways. 1/5
🚨 Big news! I'm thrilled to share that our latest research has just been published in Nature Communications 🎉 🔍 Title: DiffInvex identifies evolutionary shifts in driver gene repertoires during tumorigenesis and chemotherapy 📎 doi.org/10.1038/s41467… (1/4) ⬇️
Great news – we received funding from the Independent Research Fund Denmark @DFF_raad! 🧬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
Double PhD defense day in the lab 🤩 Congrats to our dr. Guille Palou @gpaloumarquez, fresh from the oven 🎊🥳 and similarly so our newly-minted dr. Ignasi Toledano @IgnasiToledano! Amazing defense both, bravo 👏👏
Website for the Marie Curie "INTERACT" call for interdisciplinary PhD fellowships at UCph/DTU/DCS is now up 👇 interact-msca.ku.dk Applications open 20th December.
No less than 6⃣6⃣ PhD fellowships will be available to assorted groups at 🌆U of Copenhagen & to 🇩🇰DTU via the "INTERACT" call 🎓Applications open 20/12. Spread the word! Apply + join us👇 Maybe there is a Nobel prize in physics awaiting you as well 😁 linkedin.com/posts/biotech-…
Postdoc and PhD position in AI for cancer genomics at BRIC/UCPH. Only 5 days left to apply!
➡️Postdoc in AI for Cancer Genomics at the Supek Group, BRIC candidate.hr-manager.net/ApplicationIni… ➡️PhD fellowship in AI for Cancer Genomics at the Supek Group, BRIC candidate.hr-manager.net/ApplicationIni… Deadline 14/11. For informal inquiries, drop me an email.
The youngsters from lab are at @EMBLEvents DNA Replication symposium #EESreplication 🧬 Our alumna dr. Marina @msalvadoresf and PhD Marcell @MarcellVeiner gave talks on their recent work 👏-- identifying DNA replication origins by mutation patterns and neural nets🤖
🔥PhD student & postdoc opportunity @GenomeDataLab! Are you keen on: - driving cutting-edge science @ interface of #AI and cancer #genomics? - working in a dynamic & supportive environment of @UCPH_BRIC? - joining the U of Copenhagen, top-3 ranked uni in EU? Apply below👇
No less than 6⃣6⃣ PhD fellowships will be available to assorted groups at 🌆U of Copenhagen & to 🇩🇰DTU via the "INTERACT" call 🎓Applications open 20/12. Spread the word! Apply + join us👇 Maybe there is a Nobel prize in physics awaiting you as well 😁 linkedin.com/posts/biotech-…
EMBO DNA Replication symposium -> still in time to register to attend! 👏to our @MarcellVeiner and @msalvadoresf - they will have talks on using 🤖#AI and cancer mutation analysis to understand 🧬DNA replication in human cells👇 embl.org/about/info/cou…
Deadline for abstracts approaching! Don't miss this exciting DNA Replication Symposium 🧬 Stellar speaker lineup! MANY talks selected from abstracts.
New pre-print out! 👨🔬 🔗biorxiv.org/content/10.110… Here, we studied the incidence and impact of allele-specific expression (ASE; imbalance between two alleles in mRNA levels ⚖️) in tumorigenesis. 1/6
🔢💊Un algoritmo desarrollado por expertos del #IRBBarcelona y del @CRGenomica puede predecir qué fármacos serán más efectivos para el tratamiento de enfermedades genéticas y del #cáncer. 📰@agenciaefe ➡️shorturl.at/7nmVO @GenomeDataLab @BenLehner @IgnasiToledano
2. Early stop codons cause ~10–20% of genetic conditions A promising approach is to force the ribosome to ignore the stop codon, using a drug, to produce full-length proteins How effective this is depends on the drug, the gene, and the stop codon nature.com/articles/s4158…
Very excited to have my first preprint published! 🥳 Thanks to @FranSupek and our lab @GenomeDataLab 🧬
❓Want to learn an easy trick to improve your mutational signatures? ‼️Extract them from SNV and indel mutations jointly! A study by our Patricia F. @pferrert now online, focusing on HR deficiency signature SBS3🧬 Here is a TL;DR for you 👇 (1/3)
A much improved version of this, today out in @NatureGenet ! with @BenLehner and @FranSupek nature.com/articles/s4158…
Time to share my PhD work where we quantified the translational readthrough of thousands of pathogenic stop codons and trained predictive models to predict drug-induced readthrough of any stop codon. With the priceless guidance from @FranSupek +@BenLehner! biorxiv.org/content/10.110…