Posts on X

Fun math riddle from my eldest son: combine a nonnegative integer three times to get 6, using any of +-*/!()^ and sqrt. For example 4+4-sqrt(4)=6. We solved it up to 10. How high do you get? 😅

MUON framework for multi-omics modeling by @OliverStegle lab out @GenomeBiology, congrats! Really useful for describing multi-omics data, and builds upon/plays well with @scanpy_team AnnData. genomebiology.biomedcentral.com/articles/10.11…

CaRPool-seq - exciting new assay from @satijalab: doing combinatorial perturbations with single guide. Sweet! biorxiv.org/content/10.110…

Single-cell tool ecosystem in python and dependencies as extracted from @_lazappi_’s beautiful scrna-tools.org database and @pypi. Looking fwd to see how this will develop with more multiomics & spatial tools coming in. Cf suppl fig @GenomeBiology genomebiology.biomedcentral.com/articles/10.11…

Exciting preprint from @dana_peer lab on quantifying intestinal stem cell activity. Plus, interesting new deconvolution approach BayesPrism and pretty spatial visualization method SpaceFold. biorxiv.org/content/10.110…

New review on AI in health & medicine @NatureMedicine by @pranavrajpurkar and @EricTopol, summarizing entries from their doctorpenguin.com blog: „AI is poised to broadly reshape medicine.“ Really great to see highlights beyond supervised learning! nature.com/articles/s4159…

Interested in spatial omics? Plz check out our squidpy tool, bringing together omics & image analysis to enable a scalable description of spatial molecular data. Out today @naturemethods thx to @g_palla1, @HannahSpitzer1 & team! nature.com/articles/s4159… github.com/theislab/squid…

Exciting and interesting outlook on new tech for 2022 @Nature - eg. on structure (and cryo-ET), long-read sequencing but also spatial multi-omics. nature.com/articles/d4158…

Honored that our scArches paper made cover @NatureBiotech! It allows you to project (or query) single cell expression data onto existing reference atlases without need for full data integration by leveraging transfer learning. nature.com/articles/s4158… github.com/theislab/scarc…

So happy that CellRank is finally out @naturemethods: Led by @MariusLange8 in collab with the wonderful @dana_peer, we’re learning single-cell fate maps from scRNA-seq & RNA velocity. Many additional example&improvements vs preprint, please check it out at go.nature.com/3Fm17lt

A little xmas present🎅🏼: our benchmarking study on atlas-level data integration for both scRNA-seq & scATAC-seq out @naturemethods! Born in a group hackathon, great effort headed by @MDLuecken and with @colomemaria_epi. Detailed guide on method choice at nature.com/articles/s4159…

In the hope of being able to travel for real next summer, how about spending some time visiting @helmholtz_ai? Check out our Helmholtz Visiting Researcher Grant for PhDs&postdocs for a fully-funded short-term research stay with us - DM/email if interested. helmholtz-hida.de/en/new-horizon…

Thanks and congrats @LKaderali for taking up a scientist role in German COVID round of experts!

@ELLISforEurope General Assembly happening just now, with ELLIS PhD Award 2021 to @NagraniArsha and @thomaskipf for very impressive theses on multimodal deep learning and graph NNs, respectively - congrats to both!

Come and work with us as #postdoc focussing on spatial transcriptomics & machine learning @HelmholtzMunich, within a collaborative, international network @WellcomeLeap Delta Tissue aiming to predict changes in tissue state. Also, we're nice. jobs.helmholtz-muenchen.de/jobposting/02d…

Great advice paper for making effective slides @PLOSCompBiol! Love Rule 8: 'Design the slide so that a distracted person gets the main takeaway.‘ Thanks for this, @kristen_naegle! journals.plos.org/ploscompbiol/a…

Aviv Regev @genentech talking about inference in tissue biology at our @singlecellomics seminar - audience >400, wow, conference level! I am really missing the real-world coffee break afterwards.

Wondering about recommendations of resources for teaching kids to code, from scratch to python, minecraft etc? - thanks already! Btw, when googling, one of the first hits was „How do you explain coding to your parents?“ 😂

At @BiotopiaMuseum podium discussion, got asked about bias in machine learning, and mentioned futility of bias-free learning: „when [] no bias, the probability [of] an acceptable model is equal to the probability [] uniformly randomly sampling“ cs.hmc.edu/~montanez/proj…

Enjoying taking part at discussion @BiotopiaMuseum with @HelmholtzMunich about AI in health. Intro question by our moderator: ‚where would you be ok with AI having a major role?‘ - happy to learn that ~300 participants see this in particular for analyzing data in Healthcare!

Math is also just an opinion 😂 - youtu.be/iGTyy3CR4fA (German only sry)

My wife gave me this awesome motivational card today: ‚better done than perfect’. Great motto against covid-burnout - thanks so much @TheisMichaela !

Afterparty in the planetarium @DeutschesMuseum - SugarDoctors playing 🎸🤘

Noticing I am not used to live meetings anymore. Without parallel email and browser windows open need to start to listen fully again… Or write more on twitter 😜

Discussing the joint future for health research at Munich - Presidents @MatthiasTschop @HelmholtzMunich, Thomas Hofmann @TU_Muenchen & Bernd Huber @LMU_Muenchen. Aim: towards ‚OneMunichHealth‘ ❤️

@GilesYeo - people with obesity are not lazy but are fighting biology!

Super entertaining keynote by @GilesYeo at our @HelmholtzMunich 60 years party! Stresses importance of science communication - what do you say to Noah to get on the boat? Giles: ‚statistical genetics (or any other technical term) - get back to the end of the line.‘ 😂

Excited to celebrate our 60year anniversary @HelmholtzMunich - astonishingly big and 2g-sparsified party at IMAX @DeutschesMuseum!Here our moderator @CarolinMatzko in front of the original Helmholtz desk. Congrats 🎉🎊🍾

Wondering how many cells, reads and samples you need for your next #scRNA-seq experiment? Check out scPower by @heinig_matthias lab, just out @NatureComms. General finding: more cells, less reads! scpower.helmholtz-muenchen.de nature.com/articles/s4146…

Excited that our Squidpy & @napari_imaging integration project was awarded by @cziscience 🥳🎉 We'll develop a Napari plugin to visualize & integrate sets of spatial omics data, bringing closer the #scanpy community with the #skimage imaging community. chanzuckerberg.com/science/progra…