Plate VI · News
New papers, tools and news, as posted by @fabian_theis. Replies and reposts are left out.
Interested in recording cell dynamics? Beautiful review from colleagues around Tanja Stadler and Martin Tran @NatureRevGenet on DNA recording in single cells and lienages. With lots of exciting opportunities for single cell modeling. nature.com/articles/s4157…
Thanks for the awesome xmas party @CompHealthMuc - 🌟 wishing you a holiday filled with laughter and love! ❤️🎅 #XmasParty #FestiveVibes
Really glad to see @humancellatlas bundle finally released @Nature. Greatly honored in contributing to this broad, international endeavor, with so many fantastic, nice and impactful colleagues and friends! nature.com/collections/jc…
View on X: post of 22 Nov 20241/ 🧬 Single-cell genomics reveals biological variations beyond cell types. Unveiling these in separate latent dimensions is known as disentanglement. Led by @AmirAliMoinfar, we introduce DRVI to learn nonlinear, disentangled & interpretable latent spaces. biorxiv.org/content/10.110…
Need to design your next Xenium/CosMx/Merfish experiment? Spapros, now out @naturemethods, allows for probe set selection for target spatial tx. Led by @KuemmerleLouis, it optimizes both cell type ID & within-cell type variation. nature.com/articles/s4159… github.com/theislab/spapr…
Really enjoyed getting to finally meet @EricTopol in person at a fantastic @royalsociety & @GoogleDeepMind event in London. Discussion w Eric & others helped me in my decision to switch to @bluesky for my main scientific outreach & disc. Let‘s talk at @fabiantheis.bsky.social
Grateful for the awesome people and colleagues that make up our lab - here at lab retreat and hackathon last week in the Austrian alps!
Exciting times with two Nobels this year going towards AI in the sciences!
View on X: post of 9 Oct 2024Ali @erturklab showing not only beautiful see-through organs @helmholtz_en Health Summit - but also learning from them at scale: ‘biology is a prediction game’.
Helmholtz Health Summit keynote by Sarah @teichlab about @humancellatlas
Bavarian dinner with colleagues Sasha @Misharin_lab and friends followed by Octoberfest
Interesting, interactive podium discussion on medical/genomic data sharing and privacy @ECCBinfo
Thrilled to share our „PRedictor Of PHEnoTypes“ model Prophet! Led by @Alejandro__TL & @_yji_, Prophet is a transformer-based model that predicts outcomes for unseen experiments. It aims to understands biology by learning across assays and phenotypes over 4.7M+ experiments.
Matthias @labs_mann shows first joint proteome and RNA workflow in same cell - very exciting, and lots of promises to build multimodal atlases in nearer future!
Matthias @labs_mann presenting at #scg2024 - impressive! And multiple single cell proteomics talks, it’s coming of age! Matthias predicts increased scaling in coming years, too. Let’s get ready with translation models.
#SCG2024 starting close to Athens, Greece - beautiful location and exciting science!
Happy that our ehrapy toolbox for the exploratory analysis of electronic health records is out today @NatureMedicine! It enables early QC&imputation at scale, visualization and downstream clustering & patient trajectory learning. nature.com/articles/s4159… github.com/theislab/ehrapy
Alex @falexwolf talking @scverse conference about birth of scanpy - ‘I worked on a causal inference project but didn’t go anywhere much so I started more on coding’ 🧑💻 thanks Alex!
Want to learn how transformers and large-language models can help to organize&understand single cell profiles? Led by @arturszalata, we review current such approaches in single cell genomics and give perspectives towards foundation models etc. nature.com/articles/s4159…
Back from a wonderful family vacation in Western US ☀️ - so beautiful, so different and so nice people, too! Now recharged, excited for the new challenges and discoveries ahead! 🔬🌍 #BackToScience
Excited that CellRank has just won the first @helmholtz_en software award, see hifis.net/news/2024/07/1… - congrats @PhilippWeiler7, @MariusLange8 & @dana_peer! - read about CellRank2 here nature.com/articles/s4159…
View on X: post of 30 Jul 2024Do you want to find disease-specific changes on top of a cell atlas? Led by Nastja Litinetskaya & w @mo_lotfollahi, multiMIL enables multimodal embeddings & prioritizing phenotype-specific cells via multiple-instance learning. See biorxiv.org/content/10.110… & github.com/theislab/multi…
Enjoying @ELLISforEurope Health workshop at the beautiful Austrian Academy for Sciences. Great keynotes from @ericxing about LLMs vs LBMs (large biology models) & @mmbronstein about geometric DL with application to protein interactions.
‚Drug Hunter’ Andreas Raue presenting @CompHealthMuc about applying systems biology to drug R&D. Exciting to see my former postdoc Andreas going to industry in Boston and now returning as Professor @uni__augsburg!
Speaking at TechDays Munich today, orged by @BayernInnovativ - impressive crowd of tech and research people, lkg fwd to discussions!
Sarah @teichlab talking about @humancellatlas and thymus mapping @ISSCR 2024 in Hamburg. Big audience, and exciting stem cell science!
