Maria Brbic
@mariabrbic
Assistant Professor of #computerscience and #lifesciences at @EPFL @ICepfl @epflSV Previously @Stanford #AI #compbio
Can we build multimodal models by simply aligning pretrained unimodal models with limited paired data? We introduce STRUCTURE 🏗️: a lightweight, plug-and-play regularizer that preserves latent geometry to align frozen unimodal models using <1% of paired data typically used in…
Check out Bacformer 🦠, a foundation model for bacterial genomics! Led by the fantastic @wiatrak_maciej
💥 Excited to introduce Bacformer 🦠 - the first foundation model for bacterial genomics. Bacformer represents genomes as sequences of ordered proteins, learning the “grammar” of how genes are arranged, interact and evolve. Preprint 📝: biorxiv.org/content/10.110… 🧵 1/n
💥 Excited to introduce Bacformer 🦠 - the first foundation model for bacterial genomics. Bacformer represents genomes as sequences of ordered proteins, learning the “grammar” of how genes are arranged, interact and evolve. Preprint 📝: biorxiv.org/content/10.110… 🧵 1/n
Check out our new preprint on MARBLE 🪨, a new reasoning benchmark where leading models still struggle! MARBLE provides a challenging benchmark for testing multimodal reasoning and planning under complex spatial constraints. Kudos to @YulunJiang for driving this effort!
🚨Preprint alert!🚨 Did you know there is a new reasoning benchmark where leading models like o3 still fall flat? (i.e. 0% accuracy or random perf. on hard sub-tasks) ✨Meet 𝐌𝐀𝐑𝐁𝐋𝐄, a 🪨-hard benchmark for multimodal reasoning and planning under complex spatial…
Five more days to apply! Reach out to me if you have any questions
🚨 We’re hiring @sangerinstitute! Join us as a Postdoc or ML Scientist to build generative & foundation models for biology. 🧬 Spatial + single-cell omics 🧠 Diffusion, transformers, multimodal data 💊 Drug discovery via Open Targets Apply: Postdocs in computational biology…
Deadline extended to May 25! ⏳Consider submitting your recent work to the Generative AI and Biology workshop at @icmlconf
⏰ Deadline extended to May 25th for GenAI and Biology workshop, considering multiple requests & NeurIPS deadline! 🚀Recent submissions to NeurIPS & other conferences/journals are welcome! 🧬For amazing speakers and more details: genbio-workshop.github.io/2025/
Hi everyone, we are so back! Delighted to announce the 2nd Generative AI and Biology (GenBio) Workshop @icmlconf #icml2025! Join us in this exciting discourse on all aspects of the future of #GenerativeAI and Biology!! 🧬🚀 Website: genbio-workshop.github.io/2025/ 1/n
Are you interested in the intersection of #AI and molecular #biology? Come to our @KeystoneSymp this September in beautiful Santa Fe! keysym.us/KSAIBio26 #KSAIBio26 Scholarship and short talk deadline May 20 so apply soon! Look forward to seeing you there! #AcademicTwitter
I'll be at hashtag #ICLR2025 in Singapore this week! 🎉🇸🇬 1️⃣ BigDocs: An Open Dataset for Training Multimodal Models on Document and Code Tasks 🗓️ Thu, Apr 24 | 10:00 a.m.–12:30 p.m. SGT 📍 Hall 3 + Hall 2B | Poster 280 (continual pre-training dataset to improve code and…
Check out our perspective on Multimodal foundation models in molecular cell biology now out in @Nature ! Thanks @BoWang87 @HOATIANCUI1 @fabian_theis @Alejandro__TL @JulioSaezRod @simocristea @genophoria @mo_lotfollahi
🚀 Our perspective is out in @Nature! We present a roadmap for Multimodal Foundation Models (MFMs) — large AI models pretrained across multi-omics and multi-timepoint data — to serve as the computational backbone for building virtual cells. Read the full paper in Nature:…
I'm looking forward to discussing LUNA 🌕! I'll see you there, and just to be sure, the time is at 5pm CET (11am ET), 9th April.
To kick off the Computational Spatial Biology seminar series with @nathan_levyy, we will be discussing LUNA with @yistyu. LUNA is a generative AI model that reassembles complex tissue structures from gene expressions of cells. Tune in next Wednesday, April 9 @ 11AM ET!
Tired of manual prompt engineering to solve new task with your LLM? We introduce Joint Inference—a framework for fully unsupervised adaptation of large (vision) language models that often performs on par with supervised approaches 🔥 #ICLR2025 In collaboration with @zamir_ar…
📣 New preprint! AI agents and agent laboratories are becoming better at producing autonomous research. But they usually operate in isolation w/o improving and interacting with each other. Here, we introduce 𝐀𝐠𝐞𝐧𝐭𝐑𝐱𝐢𝐯, a framework for AI agents to collaborate with a…
🚀🌐Introducing AgentRxiv: a framework where autonomous research agents can upload, retrieve, and build on each other’s research. AgentRxiv takes your research direction and progressively outputs research, building on its previous work with each new paper! 🧵
A computational framework developed by @bidumit, @halloulab and colleagues links transcriptomic analyses with mechanical signatures to study the interplay between cell mechanical forces and gene expression. nature.com/articles/s4159…
Amazing work from @mo_lotfollahi lab!
(1/n) The first preprint from our lab is now out in @NatureGenet! We tried to tackle a key challenge in spatial biology to quantitatively characterizing cellular niches by learning spatial gene programs using NicheCompas led by @SebastianBirk_. Paper: shorturl.at/b4Hjk
Congrats, Su-In Lee! 🎊🎊 So well deserved!
I'm deeply honored to be elected as an ISCB Fellow this year!🏅 Following last year’s ISCB Innovator Award, this recognition strengthens my commitment to advancing computational biology.🧬 Grateful to my students, mentors, and colleagues for their support! iscb.org/iscb-news-item…
Mosquito Cell Atlas is out! 19 dissected tissues, both male and female, before and after feeding blood. Great efforts led by Vosshall lab, and nice collaboration w/ @leslievosshall @oliwiagoldman @nadavshai and the mosquito community. doi.org/10.1101/2025.0…
Thrilled to share LUNA🌕 – our new generative AI model that reassembles tissues from dissociated cells! Think of it as AlphaFold for cells 🧬 From the MERFISH mouse brain atlas to the scRNA-seq atlas & Slide-tags datasets, LUNA is widely applicable. Bringing us closer to virtual…
Looking forward to being back at @Stanford !
We are super excited to have @mariabrbic, professor at EPFL, join us this Friday from 12-1 PM at Packard 204 to share her latest research in GenAI for Cell Biology! She has led numerous foundational works in this space including MARS, SATURN, STELLAR, etc. Join us!!
🧪 Introducing POPPER: an AI agent that automates hypothesis validation by sequentially designing and executing falsification experiments with statistical rigor. 🔥POPPER matched PhD-level scientists on complex bio hypothesis validation - while reducing time by 10-fold! 🧵👇