Moritz Schäfer (@muronglizi) 's Twitter Profile
Moritz Schäfer

@muronglizi

Talking to single cells with LLMs.

Daily paper reviews in a single tweet

Mastodon (inactive): @[email protected]
BlueSky: moritzbaio.bsky.social

ID: 928272823914811392

calendar_today08-11-2017 14:47:42

575 Tweet

265 Followers

580 Following

Devi Parikh (@deviparikh) 's Twitter Profile Photo

This post sometimes gets misunderstood (most recently on hackernews after my ICLR keynote :)). The idea behind having your entire life on your calendar isn't so much to say that your entire life needs to be prescheduled or you need to account for how you're spending every minute

Moritz Schäfer (@muronglizi) 's Twitter Profile Photo

"Why is exercise good for you?" (nature news & views) - Humans, as hunter-gatherers, evolved to 'always move' - Exercise alters gene expression throughout the body - With exercise, muscles contribute to anti-inflammation through IL-6 production nature.com/articles/d4158…

Moritz Schäfer (@muronglizi) 's Twitter Profile Photo

So happy to see our SimulateGPT paper peer-reviewed and published in CBM. Grateful to all the great co-authors, especially Stephan Reichl,QuantifiedScientist, Matthias Samwald and Christoph Bock Lab @ CeMM & MedUni Vienna sciencedirect.com/science/articl… Simulation-based prompting is becoming a powerful method to query LLMs

Moritz Schäfer (@muronglizi) 's Twitter Profile Photo

'The primitive endoderm (PrE) supports lineage plasticity to enable regulative development' - PrE is extra-embryonic tissue (at day 4) but can still recreate a full blastocyst (i.e. also embryo) - JAK/STAT supports this plasticity - cell.com/cell/abstract/…

Moritz Schäfer (@muronglizi) 's Twitter Profile Photo

"Transformers need glasses! Information over-squashing in language tasks" - In typical LLMs every token only 'sees' previous tokens (causal attention) - This leads to information inbalance across tokens - Thereby, later tokens 'vanish' in long sequences arxiv.org/pdf/2406.04267

"Transformers need glasses!
Information over-squashing in language tasks"

- In typical LLMs every token only 'sees' previous tokens (causal attention)
- This leads to information inbalance across tokens
- Thereby, later tokens 'vanish' in long sequences
arxiv.org/pdf/2406.04267
Moritz Schäfer (@muronglizi) 's Twitter Profile Photo

"What is a cell type?" - science.org/doi/10.1126/sc… - Cellular identity is insufficiently described using current 'cell type' labels - Perturbations can lighten the landscape around given cells - Diverse starting points and multimodal measurments show lead to "phenoscape" of cells

Moritz Schäfer (@muronglizi) 's Twitter Profile Photo

"Contextual AI models for single-cell protein biology" - Protein embeddings are powerful. - But: they are usually cell-type agnostic - This paper: Embedding cell-type-aware protein representations via GNNs on scRNA-seq-pruned protein interaction graphs nature.com/articles/s4159…

Moritz Schäfer (@muronglizi) 's Twitter Profile Photo

Had an amazing time with the Bock lab at this year's lab retreat! Grateful for the opportunity to help with the planning and coordination—was really fun and rewarding to see the results.

Christoph Bock Lab @ CeMM & MedUni Vienna (@bocklab) 's Twitter Profile Photo

🗨️ 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)

Moritz Schäfer (@muronglizi) 's Twitter Profile Photo

🚩So happy to finally be able to share this with all of you!🚩 A huge 'thank you!' goes to the whole team and especially Peter Peneder. It has been such a pleasure to grow the initial idea into this mature stage together.

Peter Peneder (@penederpeter) 's Twitter Profile Photo

Excited to share our new multimodal AI for chatting with scRNA-seq data! 🧬🤖💬 Big thanks to all involved, especially Moritz Schäfer , who drove much of the project. It was a great pleasure to collaborate closely, growing the initial concept into this mature stage together! 🙌🎉

Moritz Schäfer (@muronglizi) 's Twitter Profile Photo

Had a fantastic time last week at Cold Spring Harbor Laboratory's #biodata24, with amazing discussions around AI and bioinformatics and presenting my work on CellWhisperer. Thanks Michael Schatz and all organizers, looking forward to being back in 2026!

Had a fantastic time last week at <a href="/CSHL/">Cold Spring Harbor Laboratory</a>'s #biodata24, with amazing discussions around AI and bioinformatics and presenting my work on CellWhisperer.

Thanks <a href="/mike_schatz/">Michael Schatz</a> and all organizers, looking forward to being back in 2026!
Moritz Schäfer (@muronglizi) 's Twitter Profile Photo

Just presented our new multimodal histopathology method "SpotWhisperer" at ICML, one of the largest AI conference. SpotWhisperer enables spatially resolved annotation of histopathology images using natural language by "transferring" annotations from transcriptomic data.

Jure Leskovec (@jure) 's Twitter Profile Photo

🚀 I’m excited to announce Stanford Graph Learning Workshop 2025, happening Tuesday, October 14, 2025 at Stanford University University (with online livestream). Free registration! Submit a talk/poster. 📍 This year’s workshop will spotlight three fast-moving frontiers in AI & data

🚀 I’m excited to announce Stanford Graph Learning Workshop 2025, happening Tuesday, October 14, 2025 at <a href="/Stanford/">Stanford University</a> University (with online livestream). Free registration! Submit a talk/poster. 📍

This year’s workshop will spotlight three fast-moving frontiers in AI &amp; data
rishabh ranjan (@_rishabhranjan_) 's Twitter Profile Photo

Transformers are great for sequences, but most business-critical predictions (e.g. product sales, customer churn, ad CTR, in-hospital mortality) rely on highly-structured relational data where signal is scattered across rows, columns, linked tables and time. Excited to finally

Transformers are great for sequences, but most business-critical predictions (e.g. product sales, customer churn, ad CTR, in-hospital mortality) rely on highly-structured relational data where signal is scattered across rows, columns, linked tables and time.
Excited to finally
Moritz Schäfer (@muronglizi) 's Twitter Profile Photo

📝Finally out: Chat with your cells in English language - right in the browser. ✨ Try it yourself: cellwhisperer.bocklab.org Huge shout-out to my co-first-author Peter Peneder and to Christoph Bock Lab @ CeMM & MedUni Vienna and to all the other contributors for the amazing teamwork!