Fabian Theis
@fabiantheis.bsky.social
Computational biologist @HelmholtzMunich, prof @TU_Muenchen & associate PI @sangerinstitute. Dad of 4 and mountain lover. Department news, see @CompHealthMuc
Breaking down walls in #PrecisionHealth at #FallingWalls 2025! Great exchange with Frank Laukien, Caroline Gubser-Keller, Eicke Latz & Steve Quake on how AI & molecular analytics reshape medicine.
Our goal: virtual twin cells, tissues & patients.
#AIinMedicine #HelmholtzMunich
Our goal: virtual twin cells, tissues & patients.
#AIinMedicine #HelmholtzMunich
November 7, 2025 at 6:55 PM
Breaking down walls in #PrecisionHealth at #FallingWalls 2025! Great exchange with Frank Laukien, Caroline Gubser-Keller, Eicke Latz & Steve Quake on how AI & molecular analytics reshape medicine.
Our goal: virtual twin cells, tissues & patients.
#AIinMedicine #HelmholtzMunich
Our goal: virtual twin cells, tissues & patients.
#AIinMedicine #HelmholtzMunich
🚀 Prophet v3 is out!
AI that predicts how cells respond to genetic & chemical perturbations across readouts.
Now scales to 1.9 M molecules + in vitro validation of melanoma-specific hits 🧬💊
📄 biorxiv.org/content/10.1...
#AI #Biology #DeepLearning
AI that predicts how cells respond to genetic & chemical perturbations across readouts.
Now scales to 1.9 M molecules + in vitro validation of melanoma-specific hits 🧬💊
📄 biorxiv.org/content/10.1...
#AI #Biology #DeepLearning
November 4, 2025 at 5:40 PM
🚀 Prophet v3 is out!
AI that predicts how cells respond to genetic & chemical perturbations across readouts.
Now scales to 1.9 M molecules + in vitro validation of melanoma-specific hits 🧬💊
📄 biorxiv.org/content/10.1...
#AI #Biology #DeepLearning
AI that predicts how cells respond to genetic & chemical perturbations across readouts.
Now scales to 1.9 M molecules + in vitro validation of melanoma-specific hits 🧬💊
📄 biorxiv.org/content/10.1...
#AI #Biology #DeepLearning
EU commissioner Henna Virkkunen officially launching EU‘s RAISE project - its Resource for AI Science in Europe at AIS25 in Copenhagen. includes training programs, data hubs, funding and compute. Exciting & important for Europe and beyond. 🇪🇺
November 3, 2025 at 2:26 PM
EU commissioner Henna Virkkunen officially launching EU‘s RAISE project - its Resource for AI Science in Europe at AIS25 in Copenhagen. includes training programs, data hubs, funding and compute. Exciting & important for Europe and beyond. 🇪🇺
🎃 Happy Halloween from our Lab! 👻🧬
No bad computational tricks — only treats! 🧫💻✨
No bad computational tricks — only treats! 🧫💻✨
October 31, 2025 at 11:18 AM
🎃 Happy Halloween from our Lab! 👻🧬
No bad computational tricks — only treats! 🧫💻✨
No bad computational tricks — only treats! 🧫💻✨
🧬 Excited to share Nicheformer out now in Nature Methods!
A transformer foundation model linking single-cell & spatial omics, learning spatial context from gene expression to map tissue organization.
Led by Ale Tejada & Anna Schaar 👏
👉 www.nature.com/articles/s41...
A transformer foundation model linking single-cell & spatial omics, learning spatial context from gene expression to map tissue organization.
Led by Ale Tejada & Anna Schaar 👏
👉 www.nature.com/articles/s41...
October 30, 2025 at 7:19 PM
🧬 Excited to share Nicheformer out now in Nature Methods!
A transformer foundation model linking single-cell & spatial omics, learning spatial context from gene expression to map tissue organization.
Led by Ale Tejada & Anna Schaar 👏
👉 www.nature.com/articles/s41...
A transformer foundation model linking single-cell & spatial omics, learning spatial context from gene expression to map tissue organization.
Led by Ale Tejada & Anna Schaar 👏
👉 www.nature.com/articles/s41...
At the Staatskanzlei Munich for the State Reception celebrating Bavaria’s Excellence Clusters — great to see so much scientific excellence and innovation recognized and supported across disciplines. 🚀🇩🇪 #Wissenschaft #Innovation #Bayern
October 30, 2025 at 12:50 PM
At the Staatskanzlei Munich for the State Reception celebrating Bavaria’s Excellence Clusters — great to see so much scientific excellence and innovation recognized and supported across disciplines. 🚀🇩🇪 #Wissenschaft #Innovation #Bayern
Björn Schuller from TUM and Imperial talking about deep learning on mobile sensor data at scale. Wonder how and when we get all these scales together. #BavarianAcademy #MedicalAIConference
October 28, 2025 at 9:14 AM
Björn Schuller from TUM and Imperial talking about deep learning on mobile sensor data at scale. Wonder how and when we get all these scales together. #BavarianAcademy #MedicalAIConference
Eric Topol giving evening keynote at our Bavarian Conference on AI in medicine, amongst other on AI for prevention and super aging. A true visionary and communicator! see eg erictopol.substack.com/p/dawn-of-a-...
@eriktopol
@eriktopol
October 27, 2025 at 5:43 PM
Eric Topol giving evening keynote at our Bavarian Conference on AI in medicine, amongst other on AI for prevention and super aging. A true visionary and communicator! see eg erictopol.substack.com/p/dawn-of-a-...
@eriktopol
@eriktopol
Inspiring evening w/ Eric Topol, Matthias Tschöp & Markus Schwaiger. Key message: unite scientists and data across institutions to make AI medicine real — starting with prevention. 🧬🤝
Excited for the Bavarian AI in Medicine Conference tomorrow.
Excited for the Bavarian AI in Medicine Conference tomorrow.
October 26, 2025 at 9:29 PM
Inspiring evening w/ Eric Topol, Matthias Tschöp & Markus Schwaiger. Key message: unite scientists and data across institutions to make AI medicine real — starting with prevention. 🧬🤝
Excited for the Bavarian AI in Medicine Conference tomorrow.
Excited for the Bavarian AI in Medicine Conference tomorrow.
🚀 Our new Science paper is out (w/ B DeMeo, D Burkhardt, A Shalek, M Cortes): www.science.org/doi/10.1126/...
We show that active learning + transcriptomic perturbations can guide which exps to run next, boosting phenotypic hit rates >13x. AI not just predicting bio, but designing it. 🔁
We show that active learning + transcriptomic perturbations can guide which exps to run next, boosting phenotypic hit rates >13x. AI not just predicting bio, but designing it. 🔁
October 25, 2025 at 1:24 PM
🚀 Our new Science paper is out (w/ B DeMeo, D Burkhardt, A Shalek, M Cortes): www.science.org/doi/10.1126/...
We show that active learning + transcriptomic perturbations can guide which exps to run next, boosting phenotypic hit rates >13x. AI not just predicting bio, but designing it. 🔁
We show that active learning + transcriptomic perturbations can guide which exps to run next, boosting phenotypic hit rates >13x. AI not just predicting bio, but designing it. 🔁
Our lab together with the Lücken lab is in the mountains for our annual hackathon & retreat ⛰️💻
A great mix of science and community: new project ideas, evening coding, creative drawing, and a group hike.
Inspiring energy & fresh thinking, truly grateful for this awesome team!
A great mix of science and community: new project ideas, evening coding, creative drawing, and a group hike.
Inspiring energy & fresh thinking, truly grateful for this awesome team!
October 9, 2025 at 8:56 PM
Our lab together with the Lücken lab is in the mountains for our annual hackathon & retreat ⛰️💻
A great mix of science and community: new project ideas, evening coding, creative drawing, and a group hike.
Inspiring energy & fresh thinking, truly grateful for this awesome team!
A great mix of science and community: new project ideas, evening coding, creative drawing, and a group hike.
Inspiring energy & fresh thinking, truly grateful for this awesome team!
🚀 Excited to share scPortrait! Led by Sophia Mädler & Niklas Schmacke w/ the Mann lab — a new @scverse tool for standardized single-cell image data. Enables ML-ready extraction, >1B cell processing, cross-omics, & cancer macrophage insights.
🔗 www.biorxiv.org/content/10.1...
🔗 www.biorxiv.org/content/10.1...
September 28, 2025 at 5:50 PM
🚀 Excited to share scPortrait! Led by Sophia Mädler & Niklas Schmacke w/ the Mann lab — a new @scverse tool for standardized single-cell image data. Enables ML-ready extraction, >1B cell processing, cross-omics, & cancer macrophage insights.
🔗 www.biorxiv.org/content/10.1...
🔗 www.biorxiv.org/content/10.1...
Excited that our DLD Baiosphere conference on AI is starting now - with major political presence from Bavaria & great talks/panels from science and industry! MP Söder with strong commitment on academic freedom & local strength in AI to attract talents.
🚀https://dld-conference.com
🚀https://dld-conference.com
September 10, 2025 at 8:30 AM
Excited that our DLD Baiosphere conference on AI is starting now - with major political presence from Bavaria & great talks/panels from science and industry! MP Söder with strong commitment on academic freedom & local strength in AI to attract talents.
🚀https://dld-conference.com
🚀https://dld-conference.com
New paper in @ScienceMagazine with Schoof & Porse labs: We chart early human hematopoiesis using single-cell proteomics, and amongst others developed a dynamic model linking RNA to protein levels, explaining more proteomic variation.
📄 www.science.org/doi/10.1126/...
📄 www.science.org/doi/10.1126/...
September 8, 2025 at 3:23 PM
New paper in @ScienceMagazine with Schoof & Porse labs: We chart early human hematopoiesis using single-cell proteomics, and amongst others developed a dynamic model linking RNA to protein levels, explaining more proteomic variation.
📄 www.science.org/doi/10.1126/...
📄 www.science.org/doi/10.1126/...
Back from the SolvAI Retreat 2025 in Nice — amazing discussions on AI in science. Key themes: LMs alone won’t get us to scientific discovery, what makes a theory, and how AI can help us build them. Thanks to Eric Xing & Yann LeCun for organizing!
September 3, 2025 at 10:40 AM
Back from the SolvAI Retreat 2025 in Nice — amazing discussions on AI in science. Key themes: LMs alone won’t get us to scientific discovery, what makes a theory, and how AI can help us build them. Thanks to Eric Xing & Yann LeCun for organizing!
🚀 Exciting opportunity for scientists in the Bavarian AI ecosystem @bAIosphere!
Host your funded retreat or workshop at the beautiful, remote Speinshart Scientific Center for AI & SuperTech🤖.
👉 baiosphere.org/baiosphere-s...
👉 www.speinshart.ai
#AI #Bavaria #ScienceCommunity
Host your funded retreat or workshop at the beautiful, remote Speinshart Scientific Center for AI & SuperTech🤖.
👉 baiosphere.org/baiosphere-s...
👉 www.speinshart.ai
#AI #Bavaria #ScienceCommunity
July 30, 2025 at 6:51 AM
🚀 Exciting opportunity for scientists in the Bavarian AI ecosystem @bAIosphere!
Host your funded retreat or workshop at the beautiful, remote Speinshart Scientific Center for AI & SuperTech🤖.
👉 baiosphere.org/baiosphere-s...
👉 www.speinshart.ai
#AI #Bavaria #ScienceCommunity
Host your funded retreat or workshop at the beautiful, remote Speinshart Scientific Center for AI & SuperTech🤖.
👉 baiosphere.org/baiosphere-s...
👉 www.speinshart.ai
#AI #Bavaria #ScienceCommunity
Great to host Eric Xing, President & University Professor at MBZUAI, together with Dekyi Liang, Chief of Staff, at our Helmholtz Computational Health Center last Friday 🤖. Inspiring talk on “AI-driven Digital Organism” and engaging discussions with colleagues & PIs 🧬.
July 28, 2025 at 9:55 PM
Great to host Eric Xing, President & University Professor at MBZUAI, together with Dekyi Liang, Chief of Staff, at our Helmholtz Computational Health Center last Friday 🤖. Inspiring talk on “AI-driven Digital Organism” and engaging discussions with colleagues & PIs 🧬.
Very honored to receive the 2025 ISCB Innovator Award at #ISMBECCB2025 and present our lab’s journey—from mapping cells to modeling their future.
Thanks to my amazing team and collaborators—this is our award! 🙌
📽️ Keynote: Atlases, AI & virtual cells
📝 doi.org/10.1093/bioi...
Thanks to my amazing team and collaborators—this is our award! 🙌
📽️ Keynote: Atlases, AI & virtual cells
📝 doi.org/10.1093/bioi...
July 25, 2025 at 9:13 AM
Very honored to receive the 2025 ISCB Innovator Award at #ISMBECCB2025 and present our lab’s journey—from mapping cells to modeling their future.
Thanks to my amazing team and collaborators—this is our award! 🙌
📽️ Keynote: Atlases, AI & virtual cells
📝 doi.org/10.1093/bioi...
Thanks to my amazing team and collaborators—this is our award! 🙌
📽️ Keynote: Atlases, AI & virtual cells
📝 doi.org/10.1093/bioi...
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/bioinformati...
July 23, 2025 at 11:23 AM
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/bioinformati...
Helmholtz Computational Health Center summer party! 🌞🎉 great people, great energy, and a reminder that science thrives with community! #TeamScience
July 10, 2025 at 4:32 PM
Helmholtz Computational Health Center summer party! 🌞🎉 great people, great energy, and a reminder that science thrives with community! #TeamScience
🚀 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
July 4, 2025 at 8:29 AM
🚀 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
🔗 m1.bayern
July 3, 2025 at 8:11 AM
🚀 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
🔗 m1.bayern
@OpenAI opening its first German office in Munich. Exciting discussion & vision from Nick Turley, chatgpt lead and original Munich guy, but also politics @Markus_Soeder. Looking fwd to seeing impact in science directly here.
May 22, 2025 at 5:00 PM
@OpenAI opening its first German office in Munich. Exciting discussion & vision from Nick Turley, chatgpt lead and original Munich guy, but also politics @Markus_Soeder. Looking fwd to seeing impact in science directly here.
Excited to share our atlas build&use guide, out @naturemethods today. Led by @KHrovatin & @SikkemaLisa w @MDLuecken, our review highlights best practices for building, sharing, and leveraging atlases to unlock new biological discoveries. 🌍@humancellatlas
nature.com/articles/s41592-024-02532-y
nature.com/articles/s41592-024-02532-y
December 13, 2024 at 11:10 AM
Excited to share our atlas build&use guide, out @naturemethods today. Led by @KHrovatin & @SikkemaLisa w @MDLuecken, our review highlights best practices for building, sharing, and leveraging atlases to unlock new biological discoveries. 🌍@humancellatlas
nature.com/articles/s41592-024-02532-y
nature.com/articles/s41592-024-02532-y
6/ We further applied RegVelo to zebrafish neural crest development, generating new single-cell experiments (Smart-Seq3, 10x, Perturb-seq). Using RegVelo, we identified tfec & elf1 as key regulators for the pigment lineage and experimentally validated their roles. 🐟
December 12, 2024 at 2:48 PM
6/ We further applied RegVelo to zebrafish neural crest development, generating new single-cell experiments (Smart-Seq3, 10x, Perturb-seq). Using RegVelo, we identified tfec & elf1 as key regulators for the pigment lineage and experimentally validated their roles. 🐟