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Can we estimate metabolic state from single-cell transcriptomics? Led by @KHrovatin & @davidsebfischer, we review existing comp approaches for predicting single-cell metabolism, namely pathway-level analysis, constraint-based modeling & kinetic modeling. doi.org/10.1016/j.molm…

Really enjoyed visit @aw_hamburg and celebration at Hamburg city hall last Friday. Particularly impressed by Senator @fegebanks' clear and strong science vision, and appreciation of future impact of AI in health. Plus, loved short city hall tour, so grand!

Hamburg Elbphilharmonie walk with Christopher @BockLab - foggy and beautiful (the building).

As parent of a young kid I wonder if we can please finally stop these daylight savings shenanigans?

Read this nice cite by @kwbroman: "When physicists do mathematics, they don’t say they’re doing number science. They’re doing math. If you’re analyzing data, you’re doing statistics. You can call it data science or informatics or analytics or whatever, but it’s still statistics."

What’s the holy grail in computational biology? Only wrong answers.

Talked @UCLA's Bioinformatics & Human Genetics meeting today - really fun discussion & great faculty, thx for the invite! Funniest moment though was my son setting of the fire alarm midway through (was alone tonight with the kids), and audience being very understanding.. 🔥🧯👩‍👧‍👦

Had honor of joining the state dinner at Bellevue Castle hosted by our #Bundespräsident for the General Governor of Canada, Mary May Simon @GGCanada and partner. So cool, great food, music, people and wine! At end by chance met colleague Katrin Amunts @fz_juelich for this shot!

Exciting treasure challenge hunt @HelmholtzMunich during our new Computational Health Department kickoff - for this one our team had to make a poem with a bunch of ML terms. Wonder if you catch them? 🤪

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Fun illustrations by @PhilippWeiler7 at today’s group meeting, discussing maintenance of some of our tools. How is everyone doing robust tool maintenance across PhD student generations?

Maybe first @ELLISforEurope f2f meeting between Tübingen and Munich in the past two years @MatthiasBethge @ELLISmunichunit 😎🥸

Big turnout from the lab (&friends) at this year‘s Munich Half Marathon. @leon_het and @g_palla1 with sub 90‘ finish, and everyone with strong legs and great finish - congrats to all! 🤩

Silos don’t work anymore - build diverse teams and connect comp bio people & experimentalists. Check out our field guide on this, led by @DrAnneCarpenter @FertigLab and others @PLOSBiology. plos.io/3iKmKn0

Ashley Sanders @ash_d_sanders @MDC_Berlin talking at our @singlecellomics seminar on Strand-seq - "when is sequencing half a cell better than the whole", and how to learn about the impact of somatic mutations on disease.

I love Zoom meeting passcodes 😂

Maximilian Lombardo @cziscience presenting #cellxgene browser and portal at this years CZI Single Cell Biology meeting. Great and useful viewer (similar to Napari coming up next), and a fun meeting in general :)

Wrapping the group hike with the traditional downhill toboggan competition 😅

First lab retreat since like forever - having fun at Schliersee in the Bavarian alps, hackathon-style. So happy to see everyone w/o a zoom window around them! 💻🤩🗻

Coming back from a fantastic (partial) parental leave in the past 7 months. Really felt good to slow down & focus more on family - plus I learnt a lot about priorities, local playgrounds + managing things in minimal time. Looking forward to more science again now 🧬🔬👶🤘

Interesting times in Germany after this close election. We’ll likely have a 3-party government, but the path to it looks rough. Hence really like the idea voiced @spiegelonline to have an #agile coalition contract - can’t plan for 4 years in all details… spiegel.de/politik/deutsc…

Great summary on ‘Germany’s outgoing scientist leader’ Angela Merkel @Nature: her ‘support for science and rigour in policymaking has proved transformative — except on climate change’. True. 🇩🇪 election is next weekend. nature.com/articles/d4158…

Glad that our single-cell data zoo 'sfaira' (Greek: sphere) just came out @GenomeBiology: we use it internally to organize data sets & accelerate machine learning projects. Already now we can access >150 datasets >8M cells, growing. genomebiology.biomedcentral.com/articles/10.11… sfaira.readthedocs.io

Very happy that our transfer learning approach for single cell genomics is out @NatureBiotech! Led by @MohammadLotfol1, scArches allows querying & mapping own data on reference atlases without reintegrating or sharing original data. go.nature.com/3kzaSnT github.com/theislab/scarc…

RNA velocity is an exciting concept but doesn’t always ‚work’. With @VolkerBergen, @_ruslansoldatov & @KharchenkoLab, we review current state & limitations of such modeling approaches @MolSystBiol, and discuss generalizations + give some guidance. Read at doi.org/10.15252/msb.2…

Already >1000 single-cell RNA-seq analysis tools: @_lazappi_'s scRNA-tools database (scrna-tools.org) shows interesting trends, e.g. that developers have moved from pseudotemporal ordering to integrating samples & using reference datasets. biorxiv.org/content/10.110…

Excited to share that our contribution @icml_compbio on single-cell multi-omic data integration&reference mapping led by @MohammadLotfol1 has won contributed talk award. Conference paper here: bit.ly/2U2K2Ly Full paper + github code coming soon. icml-compbio.github.io/#cfp

Interested in doing a PhD in machine learning in a program connecting some of the best European ML places? Please consider applying for the @ELLISforEurope PhD program, open until Nov 21 - you'll be guaranteed to meet interesting people! ellis.eu/news/ellis-phd… @ELLISmunichunit

To all space nerds: Entertaining Starbase factory tour by @Erdayastronaut with @elonmusk. Musk about @SpaceX's rocket designs: 'In fact all designs are wrong, it's just a matter of how wrong.' Yeah, holds for our stats & machine learning models, too. 🥸🚀 youtube.com/watch?v=t705r8…

More ISMB talks: If you are interested about how machine learning can help drug discovery for single-cell technologies, check out @MohammadLotfol1’s talk on “Learning large-scale perturbation effects in single cell genomics”. iscb.org/cms_addon/conf…. #ismbeccb2021

Interested in learning how can we use RNA velocity and other high-dimensional state-readout to map the fate of single cells? See @MariusLange8's flashlight talk at ISMB on our CellRank tool and extensions: iscb.org/ismbeccb2021-p… #ismbeccb2021