Fabian Theis

1/🚀 Excited to share RegVelo, our new computational model combining RNA velocity with gene regulatory network (GRN) dynamics to model cellular changes and predict in silico perturbations. Here's how it works and why it matters! 🧵👇 biorxiv.org/content/10.110…

Helmholtz researchers are developing a precise, adaptive digital model of the cell. This model is fed millions of pieces of biological data and is ready for virtual experiments. Learn more about the #VirtualCell Project here ⤵️ helmholtz.de/en/newsroom/ar… @fabian_theis

Helmholtz Munich Wins M4 Award 2025 for RNA Therapy Spin-off Project 🏆 👉t1p.de/6fyup Researchers at #HelmholtzMunich have received the m4 Award 2025, a pre-seed competition that supports promising biomedical spin-offs in Bavaria. The award was presented during the…

Analyzing your single-cell data by mapping to a reference atlas? Then how do you know the mapping actually worked, and you’re not analyzing mapping-induced artifacts? We developed mapQC, a mapping evaluation tool biorxiv.org/content/10.110… from the @fabian_theis lab. Let’s dive in🧵

A bit late, but excited to announce our new paper, "Defining and benchmarking open problems in single-cell analysis," a joint effort led by our team (@scottgigante, @DBBurkhardt ) at @Yale and the @fabian_theis and @MDLuecken at Helmholtz! 🚀 **Open Problems**, is a living,…

Laura Martens doing great job at presenting our work on deconvolution of spatial ATAC data at #ISMBECCB2025 at Liverpool - essentially: transcriptomic methods work here, too. academic.oup.com/bioinformatics…

Three ERC Proof of Concept Grants Awarded to Helmholtz Munich Researchers 🚀 👉 t1p.de/hz9x3 Researchers at #HelmholtzMunich have received #ERC Proof of Concept Grants from the @ERC_Research, supporting the advancement of innovative biomedical technologies. This…

Interesting: nature.com/articles/d4158… - low quality papers linking some seemingly random phenotypes eg in UKBiobank, "flooding" the literature. Exploring all possible combinatorial possibilities of phenotype combinations sounds like a science business model now...

Helmholtz Computational Health Center summer party! 🌞🎉 great people, great energy, and a reminder that science thrives with community! #TeamScience

🔬API-first feature extraction for image-based profiling workflows If you need to obtain interpretable features from your segmented microscopy images, but want to do it in a fully automated way, we know the struggle. 1/6

Thrilled to collaborate with Mathew Garnett @Sanger and Parse Biosciences on the new Cancer Plasticity Atlas – a hugely exciting single cell genomics resource to decode tumor adaptation and resistance. 🔗 helmholtz-munich.de/en/newsroom/ne… #CancerAI #Plasticity #Atlas

Centaur – An AI That Thinks Like Us 🧠 Researchers at #HelmholtzMunich have developed an artificial intelligence model that simulates human decision-making with remarkable precision. 👉 t1p.de/4kjoy 🤖 The language model – called Centaur – was trained on over ten…

🚀 Ewa Szczurek kicking off the AI for Health Symposium 2025 at Helmholtz Munich today! Excited to listen to local and international experts on how generative AI is transforming molecule discovery and health. 🌟 events.hifis.net/event/2015 #AIforHealth #GenAI #Helmholtz

🚀 Yesterday marked kickoff of the *M1 Munich Medicine Alliance* – uniting LMU, TUM, and Helmholtz Munich to build Germany’s leading medical innovation hub. Major step twds translational excellence, AI-powered health, & better patient outcomes. Great! 🔗 m1.bayern

Thrilled to partner with the @sangerinstitute and @HelmholtzMunich on the Cancer Plasticity Atlas through @parsebio’s GigaLab! The single cell atlas will profile 100s of millions of single cells with AI to predict how tumors adapt in response to treatments.…

NetworkVI is a group effort by Julius Upmeier zu Belzen, Luis Herrmann, Khue Nguyen, supervised by @fabian_theis & @nebww & @CaptainSysBio at @ChariteBerlin and @HelmholtzMunich. Code: github.com/LArnoldt/netwo… Preprint: biorxiv.org/content/10.110… 🧠 Open-source & ready to use!

Advancing AI in Healthcare 👉t1p.de/19f6k #HelmholtzMunich and the Northwestern University - The Feinberg School of Medicine have signed a Memorandum of Understanding to deepen collaboration on #MachineLearning in #Health. 🤝With shared achievements like the Human…

Arc launches virtual cell AI challenge @xiaofei_lin @arcinstitute @nvidia @10xGenomics @fabian_theis @BoWang87 @yusufroohani AI contest to boost virtual cells for gene and disease prediction #DigitalModeling #HealthTech #MedTech #AI #MedicalResearch liveforever.club/article/arc-la…

Open Problems: Cracking Cell Complexity with Collective Intelligence 💡 More than 1,700 tools exist for single-cell analysis – but how do researchers know which method works best? #OpenProblems is a collaborative open-source platform designed to benchmark, improve and run…

Excited to see our Centaur project out in @Nature. TL;DR: Centaur is a computational model that predicts and simulates human behavior for any experiment described in natural language.

New OpenProblems paper out! 📝 Led by Malte Lücken with Smita Krishnaswamy, we present openproblems.bio – a community-driven platform benchmarking single-cell analysis methods. Excited about transparent, evolving best practices for the field! 🔗 nature.com/articles/s4158…