Brian Clarke
@brianfclarke.bsky.social
Group Leader and Deputy Division Head at German Cancer Research Center (DKFZ). Mechanistic AI in Genomics – https://maigegroup.github.io
Please help spread the word! We are recruiting multiple Postdoctoral Fellows as part of the recently launched Bakar Computational Biomedicine Initiative (BCBI) at UC Berkeley and UCSF. BCBI website: bcbi.berkeley.edu Apply by Nov 1, 2026: berkeley.infoready4.com#freeformComp... (1/n)
Bakar Computational Biomedicine Initiative | Bakar Computational Biomedicine Initiative
bcbi.berkeley.edu
We are excited to announce a new faculty position in AI for Biology at UC Berkeley. Please repost & share this opportunity with outstanding early-career researchers in your networks. Apply by Nov 9, 2026: aprecruit.berkeley.edu/JPF05560
Assistant Professor - AI for Biology - Electrical Engineering & Computer Sciences and Center for Computational Biology
University of California, Berkeley is hiring. Apply now!
aprecruit.berkeley.edu
We are thrilled to share that our GPN-Star manuscript is now published and freely available: doi.org/10.1038/s415... (1/n)
Predicting genome-wide functional constraints with GPN-Star - Nature
GPN-Star, a genomic language model with a phylogeny-aware architecture for whole-genome alignment data, is shown to be a scalable and flexible tool for genetic variant effect prediction across species...
doi.org
1/4 Job alert: Our group is looking for a postdoc for a three-year position in an international collaboration with Marc Jan Bonder and @science-wallet.bsky.social. Recruiting is through the DKFZ International Postdoc Program: www.dkfz.de/en/karriere/... Deadline: September 8
DKFZ Postdoctoral Fellowships - German Cancer Research Center
dkfz.de
Our division is recruiting a PhD student through the Helmholtz Information and Data Science School for Health (HIDSS4Health). The supervision will be joint between me, @oliverstegle.bsky.social and @junyanlu.bsky.social. www.hidss4health.de/application/ → Project ID03 Deadline August 18
Application - Helmholtz Information & Data Science Academy
hidss4health.de
I am thrilled to share that UC Berkeley and UCSF have launched a joint initiative in Computational Biomedicine! cdss.berkeley.edu/news/uc-berk... We will soon be recruiting new faculty and postdoctoral fellows. Please repost to help spread the word.
UC Berkeley and UCSF Launch Computational Biomedicine Initiative
UC Berkeley and UCSF have launched a joint program called the Bakar Computational Biomedicine Initiative to develop the frontier of AI and biomedicine, tremendously accelerating advances in clinical c...
cdss.berkeley.edu
#ESHG attendees: Hope to see you at my presentation about our Nature Genetics paper on deep learning for rare variant genetics. Sunday 8:30-9:15am in session E02. It's an educational session for non-experts in AI, so I'll start from the basics and explain the principles behind the model in detail.
Integration of variant annotations using deep set networks boosts rare variant association testing - Nature Genetics
Deep rare variant association testing (DeepRVAT) is a deep set neural network model that flexibly integrates rare variant annotations into a trait-agnostic gene impairment score. These scores improve ...
nature.com
Hi Genetics/Comp-Bio community 👋 Interested in mentoring a comp-bio research student in East Africa over the summer? Do you have any experience in bioinformatics, biostats, genome/RNA-seq analyses, ML, or metagenomics? We'd love to have you as a mentor in our new program! 🧵 (1/n)
Some thoughts on where AI in genomics stands right now, building on a symposium we recently hosted at UChicago. Seven points, ranging from why scaling DNA models hasn't delivered, to why metadata is the real bottleneck, to the weird backlash against AI in academia open.substack.com/pub/blekhman...
Seven points on the current state of AI in genomics
A grounded take from the messy middle of an AI revolution
open.substack.com
This was a great conference, and exciting to see Katharina and Dominik's work (with many other great collaborators) presented!
Stegle Lab@steglelab.bsky.social · 6mo agoTwo weeks ago, MAIGE group leader @brianfclarke.bsky.social and Katharina, together with Dominik (Steinmetz lab) joined #Perturb2026, exploring new technologies and datasets. Highlight: Katharina’s first short talk on large-scale perturbation screens in cardioids and great discussions at our poster!
Join us for a postdoc in AI in human genetics at @embl.org in close collaboration with Adrian Cortes (GSK) and @brianfclarke.bsky.social - exploring the effects of rare variants using population-scale cohorts and single-cell readouts. 🔗 Apply now: embl.wd103.myworkdayjobs.com/en-US/EMBL/d...
Dreaming of a career in cancer research? Join the International PhD Program at DKFZ - Germany’s largest biomedical research center. Explore #cancerresearch including #cancerbiology, #bioinformatics, #epidemiology & #medicalphysics. The Summer Selection is open now 👉 apply here: t1p.de/hl56b
This is a great opportunity, with recruiting by many excellent DKFZ PIs, including yours truly. If you'd like to know more about what kinds of projects we work on, check out our group website: www.dkfz.de/en/computati...
Deutsches Krebsforschungszentrum (DKFZ)@dkfz.bsky.social · 7mo agoDo you want to do your #postdoc in #cancerresearch with the most prestigious fellowship in Europe? Apply to DKFZ #MSCA MasterClasses by May 18. 26 Projects in cancer research including #cellandmolecularbiology #genomics #bioinformatics #immunology. @horizoneu.bsky.social 👉Apply here: t1p.de/nx6tu
📢 Last call for the EMBL International PhD Programme summer recruitment! This is a fully funded PhD programme fostering creative approaches to questions in the molecular life sciences. Join us promoting scientific excellence throughout Europe. Apply now! www.embl.org/about/info/e...
Delighted to present Latent Interaction Variational Inference (LIVI), a framework for trans-eQTL mapping at single-cell resolution that I developed during my PhD together with colleagues from @steglelab.bsky.social 1/n
bioRxiv Genomics@biorxiv-genomic.bsky.social · 8mo agoMapping trans-eQTLs at single-cell resolution using Latent Interaction Variational Inference. https://www.biorxiv.org/content/10.64898/2026.02.04.703363v1
Steffi wrote a fantastic master's thesis with us and I'm very happy she decided to stay on for her PhD. She's already made some intriguing discoveries (stay tuned!) and I can't wait to see what's next. Welcome, Steffi!
Stegle Lab@steglelab.bsky.social · 11mo agoPlease join me in welcoming Stefanie Mantz to our lab! 👋 Steffi joins us as a PhD student after completing her Master’s at Heidelberg University. She will explore gene regulation and cell differentiation using organoid models and is excited to analyze these complex datasets and develop ML methods.
Really great to have Gesa join the team! She's already shown a ton of enthusiasm, and I'm impressed by her keen analytical insights. Excited to see what she'll develop in her time here! Welcome, Gesa!
Stegle Lab@steglelab.bsky.social · 11mo agoWelcome to our team, Gesa Voigt! 👋 During her molecular biology studies, Gesa developed an interest in applying mathematics and ML to understand complex biological systems. Her PhD research will focus on inferring GRNs by integrating insights from population genetics and genetic perturbation data.
An open-rank faculty search in AI + Engineering (Bioengineering included) at UC Berkeley. Due date: Monday, Nov 3, 2025 at 11:59pm (PT) Please help spread the news. aprecruit.berkeley.edu/JPF05144
Assistant/Associate/Full Professor – Engineering + Artificial Intelligence - College of Engineering (host academic department(s) to be determined)
University of California, Berkeley is hiring. Apply now!
aprecruit.berkeley.edu
Excited to be at #ASHG2025 in Boston next week. On Thursday, I will be presenting a poster (1007T) on our latest work on Personalised sequence to expression modelling. Looking forward to meeting new folks and reconnecting with old friends and colleagues.
Don’t miss Manu’s poster on DeepGenoXcan, our new personalized and interpretable sequence-to-expression model, at #ASHG2025! 📅 October 16, 2:30pm-4:30pm 📍 Poster 1007T
Manu Saraswat@manusaraswat.bsky.social · last yr.Excited to be at #ASHG2025 in Boston next week. On Thursday, I will be presenting a poster (1007T) on our latest work on Personalised sequence to expression modelling. Looking forward to meeting new folks and reconnecting with old friends and colleagues.
Do you want to link genomic variants to functional gene expression - cell by cell? SDR-seq makes it possible; an experimental method connecting coding and non-coding variants to expression in single cells. Proud to have contributed a custom FASTQ-processing tool to this great collaborative project.
EMBL@embl.org · last yr.EMBL scientists have created a more sensitive single-cell sequencing tool for genomic variants and RNA in the same single cell. Known as SDR-seq, the tool has unprecedented scale, precision, and speed to characterise variants and link them to functions and disease. www.embl.org/news/science...
Grateful to have been included in this interesting and sure to be very impactful work!
Yun S. Song@yun-s-song.bsky.social · last yr.We are excited to share GPN-Star, a cost-effective, biologically grounded genomic language modeling framework that achieves state-of-the-art performance across a wide range of variant effect prediction tasks relevant to human genetics. www.biorxiv.org/content/10.1... (1/n)
📢 Recruitment for the EMBL International PhD Programme is officially open! At EMBL, we train young scientists to become skilled and creative future leaders in academia and other sectors. Join us and get a head start on your career in life sciences! bit.ly/47mmiFF
Deadline in 9 days - apply now!
Oliver Stegle@oliverstegle.bsky.social · last yr.Job alert: Join us for a postdoc in AI in genetics at @EMBL Heidelberg! Great collaboration with @Adrian Cortes @GSK, aiming to develop new tools to elucidate genetic effects using population-scale cohorts and single-cell readouts. Please share! embl.wd103.myworkdayjobs.com/de-DE/EMBL/d...
Job alert: Join us for a postdoc in AI in genetics at @EMBL Heidelberg! Great collaboration with @Adrian Cortes @GSK, aiming to develop new tools to elucidate genetic effects using population-scale cohorts and single-cell readouts. Please share! embl.wd103.myworkdayjobs.com/de-DE/EMBL/d...
Postdoctoral Researcher in Computational Genetics
The research group of Oliver Stegle looks for a postdoctoral researcher to join a collaborative project with GSK with the goal to apply computational methods to investigate the effects of rare variant...
embl.wd103.myworkdayjobs.com
We're hiring! Want use deep learning to discover genetic disease mechanisms and therapeutic targets? Like the sound of applying Bayesian deep learning, DNA language models and federated learning to this exciting problem? Then this position in our group is for you!
PhD Student in Deep Learning for Rare Variant Genetics
jobs.dkfz.de
An insightful thread for the second study by the one and only @manusaraswat.bsky.social that spearheaded this superstar team effort together with @lauraruedag.bsky.social and Elisa Heinzelmann in the labs of @oliverstegle.bsky.social and me: bsky.app/profile/manu...
Manu Saraswat@manusaraswat.bsky.social · last yr.🧠 Excited to share my main PhD project! We mapped the regulatory rules governing Glioblastoma plasticity using single-cell multi-omics and deep learning. This work is part of a two-paper series with @bayraktarlab.bsky.social @oliverstegle.bsky.social and @moritzmall.bsky.social, Preprint at end🧵👇
How does tumour heterogeneity arise? How can we predict cancer cell plasticity? In 2 new studies, we trace #glioblastoma heterogeneity to a spatial cancer cell trajectory w. multimodal cell atlassing bit.ly/4mkrWgs & predict plasticity w. snRNA/ATAC+deep learning bit.ly/3FbI6Ic 🧵
🧠 Excited to share my main PhD project! We mapped the regulatory rules governing Glioblastoma plasticity using single-cell multi-omics and deep learning. This work is part of a two-paper series with @bayraktarlab.bsky.social @oliverstegle.bsky.social and @moritzmall.bsky.social, Preprint at end🧵👇
