CellWhisperer can now run on your laptop. Talk to your cells! And check out our paper: www.nature.com/articles/s41...

Multimodal learning enables chat-based exploration of single-cell data - Nature Biotechnology

CellWhisperer uses multimodal learning of transcriptomes and text to answer questions about single-cell RNA-sequencing data.

nature.com

Moritz Schaefer@moritzbaio.bsky.social · 5mo ago

Want to analyze your single-cell data, but don't like to deal with code? 🧬 Good news: CellWhisperer now runs on your MacBook! 💻 Get your single-cell AI assistant running in under 5 minutes. ⏱️ Made with ❤️ @bocklab.bsky.social Code and docs at cellwhisperer.bocklab.org

HIRING: We recruit postdocs via the CeMM Pre-ERC Postdoc Program (cemm.at/postdoc-prog...). Seeking 3 types of candidates: (1) experimental systems biology in immunity or cancer; (2) bioinformatics & biomedical ML/AI; (3) tech-dev & bioengineering (CRISPR, single-cell, spatial, cell programming).

PostDoc Program

CeMM Pre-ERC Postdoc Program

cemm.at

HIRING: We recruit PhD students via the AITHYRA-CeMM PhD Program (cemm.at/phd-program). Seeking 3 types of candidates: (1) experimental systems biology in immunity or cancer; (2) bioinformatics & biomedical ML/AI; (3) tech-dev & bioengineering (CRISPR, single-cell, spatial, cell programming) (1/5)

CeMM PhD Program – Molecular Medicine Research in Vienna

Join the CeMM PhD Program in Vienna and pursue cutting-edge research in cancer, immunology, aging, and precision medicine. Applications open in 2025!

cemm.at

A paper in Nature Biotechnology presents CellWhisperer, which uses multimodal learning of transcriptomes and text to answer questions about single-cell RNA-sequencing data. go.nature.com/3XqzItR 🧬 🧪

Multimodal learning enables chat-based exploration of single-cell data - @bocklab.bsky.social @cemm.oeaw.ac.at @meduniwien.ac.at go.nature.com/3WPGJnW

Multimodal learning enables chat-based exploration of single-cell data - Nature Biotechnology

CellWhisperer uses multimodal learning of transcriptomes and text to answer questions about single-cell RNA-sequencing data.

go.nature.com

🗨️ Just published in Nature Biotechnology: Our CellWhisperer AI enables chat-based analysis of single-cell sequencing data. You can talk to your cells & figure out the biology without writing any computer code. Paper here: www.nature.com/articles/s41.... Annotated walkthrough in a thread below (1/11)

🗨️Chat with your cells, explore #CellWhisperer! CeMM PI Christoph Bock (@bocklab.bsky.social) together with @meduniwien.ac.at & @stanna-ccri.bsky.social have developed a new #AI tool that lets scientists explore single-cell data using plain English. ➡️ https://bit.ly/3JQqe87 📄 https://bit.ly/3WJCxGi

🧬 CAR T cells demonstrate the power of engineered cells as therapeutics. But they fail for most patients. Can CRISPR help here? Our new paper in Nature (www.nature.com/articles/s41...) presents a screening platform to optimize immunotherapies & discover boosters of CAR T cell function. (1/13)

We’re thrilled to announce that the "High-Content CRISPR Screening" conference will take place on March 18–19, 2026, in Vienna, Austria. The registration is now open via the conference website: lnkd.in/d8KACZy5 Meet the Speaker: Christoph Bock @bocklab.bsky.social

🛡️How do macrophages tailor their defenses to different pathogens? Our new paper in @cp-cellsystems.bsky.social combines dense multi-omics time series with high‐content CRISPR screens (CROP-seq) to map the regulatory landscape underlying macrophage immune responses: www.cell.com/cell-systems... (1/9)

🧬How do #macrophages respond so quickly to pathogens? A new study by CeMM & @meduniwien.ac.at researchers, led by @bocklab.bsky.social & @mfarlik.bsky.social, reveals key regulators of immune responses using gene editing & machine learning. ➡️ More info: bit.ly/40p5ABe 🔗 Study: bit.ly/4lwEAIm

🔬 Toward histopathology 2.0: spatial transcriptomes inferred from routine diagnostic H&E images + a chat interface for cell-resolution histopathology through English language. (1/6)

POSTDOC OPPPORTUNITY: We are recruiting via the CeMM postdoc program. Looking for 3 types of candidates: 1. Bioinformatics & systems biology (e.g., immunology, neurobiology or cancer) 2. ML/AI methods for biology & precision medicine 3. Technology development & bioengineering Details below (1/3)

AI in medicine ready for takeoff 🤖🚁 We flew a drone through the Institute of Artificial Intelligence @MedUniWien. Join us for the trip and watch our team at "work". #AI #biomedicine #innovation #makingof (1/2)

AI in medicine ready for takeoff 🤖🚁 We flew a drone through the Institute of Artificial Intelligence @MedUniWien. Join us for the trip and watch our team at "work". #AI #biomedicine #innovation #makingof (1/2)

CeMM's new Research Report is online - a piece of art as always (link below). Each research group selected a mathematical formula that symbolizes their research and visualized it in a live-staged group picture. We picked Shannon entropy, as biomedicine is all about information (and sometimes messy)

Job Posting: Senior NGS Technology & Deputy Head of the Biomedical Sequencing Facility (CeMM Research Center for Molecular Medicine of the Austrian Academy of Sciences & Medical University of Vienna)

Could a CRISPR screen help you discover new biology? Should you consider high-content readouts such as single-cell or spatial profiling? Check out our methods primer for a hands-on guide (www.nature.com/articles/s43...), co-authored by many experts in the field & now over 225,000 views/downloads.

High-content CRISPR screening - Nature Reviews Methods Primers

CRISPR screening is a high-throughput approach for identifying genes, pathways and mechanisms involved in a given phenotype or biological process. High-content read-outs of these screens, such as imag...

nature.com

LAST CHANCE TO APPLY - DEADLINE 21 January 2025

Christoph Bock Lab @ CeMM & MedUni Vienna@bocklab.bsky.social · 2y ago

HIRING: We offer several PhD student positions in the CeMM PhD Program. Looking for 3 types of candidates: experimental systems biology in cancer & immunity; bioinformatics & biomedical ML/AI; tech-dev & bioengineering. Join an a highly collaborative lab in molecular medicine. Details below (1/4)

Thrilled to see our work with the @bocklab.bsky.social featured in 'The Scientist'! It's a really great read and builds on an interview I had with the @kamalnahas.bsky.social. www.the-scientist.com/an-ai-lab-pa...

An AI Lab Partner Helps Sift Through Transcriptomics Data

Big omics datasets can be overwhelming for researchers with limited programming skills, but texting with a new AI chatbot could help them wade through their results.

the-scientist.com

HIRING: We offer several PhD student positions in the CeMM PhD Program. Looking for 3 types of candidates: experimental systems biology in cancer & immunity; bioinformatics & biomedical ML/AI; tech-dev & bioengineering. Join an a highly collaborative lab in molecular medicine. Details below (1/4)

We are recruiting a Tenure-track Assistant Professor "Machine Learning in the Life Sciences" at the Medical University of Vienna. We will nominate the top candidate for a € 1.8 million starting grant by a Viennese foundation. Deadline: Dec 31st. Details: medical-epigenomics.org/files/Tenure...

🗨️ WANNA TALK TO YOUR CELLS? Try out CellWhisperer – our new multimodal AI that turns single-cell RNA-seq analysis into a conversation. No coding needed, just chat in plain English. Short walkthrough below. Web app & bioRxiv preprint linked in the thread. Let's dive in! (1/9)

We are recruiting a PhD student in ML/AI methods and biomedical applications, within @ELLISforEurope & @humancellatlas. Keywords: Perturbation modeling, generative AI, synthetic biology, cancer immunotherapy, precision medicine. Great environment in Vienna. medical-epigenomics.org/files/PhD_St...

Ready for an expedition into the unknown? We are recruiting two postdocs through the CeMM Postdoc Program. Our group combines ML/AI in bioinformatics, CRISPR & single-cell technology development, and biomedical applications in cancer & immunity. Details: www.cemm.at/fileadmin/us...

Thanks Nature Immunology for highlighting our paper with a Research Briefing, explaining the broader relevance with a bit of backstory and quotes from a reviewer and the editor. The paper is open access, but the Research Briefing is not – please use the following link for free access: rdcu.be/dGnH0

Baseline JAK–STAT signaling maintains immune cell homeostasis

Nature Immunology - Homeostatic immune cells remain perpetually vigilant against pathogens. We found that baseline JAK–STAT signaling supports the characteristic transcriptional and...

rdcu.be

🧬 WHAT KEEPS IMMUNE CELLS AWAKE & ATTENTIVE? It’s their neighbors – stimulation from the tissue environment. We profiled epigenomes & transcriptomes of 12 JAK-STAT mutant mice and found surprisingly strong effects at homeostasis. Paper just out in Nature Immunology: www.nature.com/articles/s41...

Would CRISPR screening help you discover new biology? Check out our methods primer for a hands-on guide (www.nature.com/articles/s43...), co-authored by many experts in the field. Published in 2022, this review has already >150,000 views/downloads (according to the journal). Thank you!

High-content CRISPR screening - Nature Reviews Methods Primers

CRISPR screening is a high-throughput approach for identifying genes, pathways and mechanisms involved in a given phenotype or biological process. High-content read-outs of these screens, such as imag...

nature.com

DEADLINE APPROACHING: We are recruiting a Senior Bioinformatician / Biomedical Data Scientist for our research group at the CeMM Research Center for Molecular Medicine & the Institute of Artificial Intelligence of the Medical University of Vienna. Details: cemm.onlyfy.jobs/job/qy9y9wl6

Congratulations @TKrausgruber for the 2023 Science Award of the Austrian Society of Dermatology and Venereology, recognizing our @ImmunityCP paper on sarcoidosis (with Georg Stary): doi.org/10.1016/j.im.... The prize was shared with Harald Kittler for great work on ML-based melanoma diagnostics.