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Very pleased to announce that scVelo is out at go.nature.com/30m2ak0 with several new features such as differential kinetics. What a great honor to work this out with @fabian_theis and @falexwolf!
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Volker Bergen
55 posts
Volker Bergen
@VolkerBergen
Computational Biology
Munich Katılım Ekim 2019
45 Takip Edilen526 Takipçiler
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Volker Bergen retweetledi
Introducing scPerturb, a collection of 44 single cell perturbation datasets with unified annotations available at scperturb.org (1/5)
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Volker Bergen retweetledi
A bit late to the party, but excited to add summer interns to my team and appreciative of any help to spread the word.
Benchmark: 2/2 previous summer interns with multiple job offers have since joined full time. The 3rd is censored (yet to graduate).
linkedin.com/feed/update/ur…
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Volker Bergen retweetledi
Squidpy 🌌🍤🐍🎉 is out in @naturemethods !
Truly collab effort with @HannahSpitzer1 Michal Klein @fabian_theis lab!
nature.com/articles/s4159…
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Volker Bergen retweetledi
More exciting news on this: our work has made the cover of @NatureBiotech. AI helps democratize to analyze single-cell data! It basically works like a google map navigator to navigate you through the map of cells to analyze your data!
Mo Lotfollahi@mo_lotfollahi
(1/3)I am happy that scArches is finally out, this is how we think about the future of single-cell genomics, instead of analyzing every new data from scratch, harness the power of multi-omic reference atlases using transfer learning to transfer knowledge!
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Volker Bergen retweetledi
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…
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Volker Bergen retweetledi
(1) Finally out, after one of the most painful and long reviews (with nitpicky reviews, see my last comment) is a method that I am extremely proud of and excited about. One of the best in my career: nature.com/articles/s4159…
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Volker Bergen retweetledi
Finally published in @naturemethods: CellRank for directed #SingleCell fate mapping, our take on studying cellular dynamics using RNA velocity. Fantastic collab between labs of @dana_peer @sloan_kettering and @fabian_theis @HelmholtzMunich, read at go.nature.com/3Fm17lt. 1/17
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Volker Bergen retweetledi
Chromatin Velocity reveals epigenetic dynamics by single-cell profiling of heterochromatin and euchromatin go.nature.com/3mLPL2y
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Volker Bergen retweetledi
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…
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Finally, we describe possible extensions to account for more complex kinetics, stochasticity, gene regulation, multivariate, and omics readouts. doi.org/10.15252/msb.2…
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Simulations and a small mathematical exposition show how time-dependent rates shape curvature patterns.
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Perspectives in RNA velocity! Great insights on this intriguing concept from most fruitful discussions wrapped into a manuscript on **current challenges and future perspectives**, with @_ruslansoldatov, @KharchenkoLab and @fabian_theis. Check out doi.org/10.15252/msb.2….
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Volker Bergen retweetledi
Stunning talk by Özlem Türeci @BioNTech_Group at our @HelmholtzMunich townhall meeting, describing their #covid19 vaccine development in only 10 months, now administered to 260M people - what a success story!
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Volker Bergen retweetledi
In partnership w/ @fabian_theis of @HelmholtzMunich, we’ve built & open sourced #AI that will accelerate discovery of new drug combinations. ai.facebook.com/blog/ai-predic…
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Volker Bergen retweetledi
(1/6) Just released: CellRank 1.3 (bit.ly/31wgMgt) works beyond RNA velocity by introducing new ways to compute transition matrices and methods to visualize them. Our new external module encourages community engagement and new tutorials make it easier to get started.
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Volker Bergen retweetledi
Cellarity raised $123M Series B financing to drive a new approach to #drugdiscovery targeting the cell. Our blend of expertise across systems biology, high-res data, and #machinelearning is uncovering treatments for patients. #cellbehavior #singlecell #ai bit.ly/2ZMhyoE
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