🧑‍🎄🎄 Christmas Foundation Model Release: scPRINT-2 **One-liner:** a **20M-active-param** single-cell foundation model trained on **350M cells / 16 species / 300 tissues / 500 cell types**. 1/6

It was a blast hosting our Nucleate Inside AI roundtable at the France Techbio 2025 event.

🌐🧬I am excited to present you a round table I am doing together with Matteo Marengo Gabriel Michaux as part of our emerging Nucleate Parisian chapter led by Clara Brouaux 🔥. Title: **Inside AI: Choosing the Right Path to Value Creation** 1/3

Next week we will see the first conference where both the main authors and reviewers are LLM Agents! This might be fun to follow: agents4science.stanf... 👀 🤖

I am presenting my PhD work today at the conference on immuno oncology in Toulouse's CRCT Oncopole! Happy to talk about how we can use foundation models in the real world 🧬 🧑‍⚕️

Proud to be a Nucleate Leader! 🚀 Being a Nucleate Leader means joining a community of peers who step up to shape the future of biotech — leading teams, driving programs, and building ventures that make real impact.

The first 1 million prime numbers vizualized in 2D according to their prime factors (Umap) Source: johnhw.github.io/uma...

what they sell you, what you get...

If you are launching your biotech / techbio startup in Paris or anywhere else in the world actually, think about applying to Nucleate's Global Activator Program! 🚀 🧬 Many people to meet and things to learn from Researchers, Investors, CEOs and more!

In 2025, deciding to have a child without full genome sequencing of both parents is borderline reckless. It costs under €400. Takes 2 minutes. Could save your child’s life. Yet >200 million people live with rare genetic diseases—many preventable by this simple test. 1/2

I am at ISMB ECCB this week 🧬👨‍💻Do reach out if you are in Liverpool and want to chat about AI, target discovery and disease modelling 😊

If you are at ICML, I would be happy to meet to talk about AI, bio, and drug discovery!

Very happy to share that my new paper got accepted at the ICML workshop for Foundation model for Life Sciences!! www.biorxiv.org/cont... Foundation Models are being trained from atoms to molecules ⚛️, molecule chains 🧬, entire cells 🦠, and even groups of cell across tissue slices 🫁

scPRINT is now finally on the Chan Zuckerberg Institute's Model Hub! 🎉 🧬 🌈 It is one more way you can use this cell foundation model to embed, denoise, predict cell type, get gene networks from your data from scratch, or fine-tune it on your own application / usecase: virtualcellmodels.cz...

Thanks to @GenBioAI to let me present my work on scPRINT and to have synthetised it so expertly in their blog post: genbio.ai/scprint-ge... Watch the full presentation here: www.youtube.com/watc...

I see people want to compete with scDataLoader... arxiv.org/abs/2506.0...

The first convincing example I saw of why one would want to map across species: www.biorxiv.org/cont... 1/2

cool cryoEM+ML talk Showing the future of the protein structure data modality and by doing-so, where structural models like AF3 will go next and how they might be trained www.youtube.com/watc...

As part of my research, I believe that scientific outreach is essential. Last week, I had the pleasure of presenting how AI can help us understand biology and the cell at Pint of Science 2025! I also put together a short video recap (in French) for those curious: youtu.be/fc8L8Dn_7tw... 1/2

As part of my research, I believe that scientific outreach is essential. Last week, I had the pleasure of presenting how AI can help us understand biology and the cell at Pint of Science 2025! I also put together a short video recap (in French) for those curious: youtu.be/fc8L8Dn_7tw... 1/2

Great to see my work featured on the CNRS website! Read more at www.nature.com/articles/s41...

I feel that arc browser and the browser company is really an example of how a founder can get brain-wormed by crazy investors up to the point of leaving the only value proposition of its project and go back to the masses of AI branded company with nothing to sell other than marketing. So sad..

Come hear and chat about scPRINT, a foundation model of single-cell data that can generate gene networks, annotate cell types and more! Tomorrow (hosted by @superbioai) us06web.zoom.us/meet...

Open-AI's O3 model is magic. Can't wait for more tool use and faster reasoning.

In China there are institutes devoted to using AI, and sequencing technologies, to advance Chinese traditional medicine 🤯 tcmx.tsinghua.edu.cn...

I am super happy to annonce that after 9 months under review the first paper of my PhD: scPRINT is finally available on Nature Comms! 🎉🧬 www.nature.com/artic...

I will be talking about scPRINT and it's availability on @superbio.ai on the 23rd of April here: www.linkedin.com/pos...

Got invited with @Nucleate, to the @McDermott conference on health and life science last week. web.cvent.com/event/.... Loads of important business insights from leaders in the field!

If you are in Lyon today I will be presentating scPRINT and doing a hands-on session at the AI4Biomed spring school ☀️👨‍💻 indico.engineering.u...

AI for life sciences day 2 started! @m-albert.bsky.social is now teaching AI for image analysis. Felipe Llinares from Bioptimus will then talk about LLMs, with short talks from @jkobject.com from my team and @emordret.bsky.social from @audeber.bsky.social team. @pasteur.fr @pasteuredu.bsky.social

Who would have thought Donald Trump to be the first person to dramatically decrease the US billionaire's net worth

I am sorry to be blunt but why isn't everyone out on the streets right now?

Science is absolutely key to the US's success but this government's intention to now dramatically reduce the part of the federal grants that go to the university (in addition to the researchers; the "indirects") is like removing the unseen roots of a tree and expecting it to continue to flourish.

Me, a Spaniard, looking at the research cuts proposed in the US:

Encouraging underrepresented minorities to apply for diversity fellowships instead of other programs and then canceling those programs after submission is perverse discrimination.

AAAAAAAAAAAAAAAHHHHHHHHHHHHHH

Man bsky is such a nicer place than X! 🌞🏖️

On Tuesday at 2025-02-04 18:00 CET, @jkobject will talk about scPrint, a transformer model that infers gene networks from scRNA-seq data, at our 2nd community meeting of 2025! For more information, check out the GitHub: https://buff.ly/40RJ3gT & pre-print https://buff.ly/4hwK4Av

Thanks for having me. It was really nice and a first for me animating a primer session! 💯

I know someone who took their grandfather, a WW1 veteran, to see Peter Weir's Gallipoli. They loved it until a scene in Cairo where you see the anachronistic soles on the soldiers' boots, at which point he walked out.

Check out this systematic benchmark of genome-wide, annotation agnostic DNALMs & strong baseline ab-initio models for biologically meaningful tasks in regulatory genomics 1/

Happy to have been part of the Bio x AI Hackaton on Spatial Transcriptomics and predicting molecular profiles from pathological slides. Our challenge was what can a team of fairly newcomers to spatial transcriptomics can achieve in the field in less than 24 hours? 1/6

More proteins! 🥳 www.science.org/content/arti...

2 weeks later and a very much updated starter pack with many new arrivals to BSKY and some important miss on my end. Please follow again :) go.bsky.app/Gia7iMf

I challenge anyone: Come up with a cool transformer model name that ends in "former" and is not already a preprint.

When there are no strong recommendation algorithms, how do we surface unknown researchers who are bringing interesting new things? We have heard of the anon ML anime people from X but what about all other Ph.D. students. It feels like this freezes the big PI-win-all structure of research a lot more

Another example of the different results one gets from a Scanpy vs. Seurat analysis, in this case a Visium HD dataset from academic.oup.com/bioinformati... 13 vs. 20 clusters. And qualitatively different results, corroborating what we saw in biorxiv.org/content/10.1...

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