Jonas (josch1@bsky)
@josch_f
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Phenoscaping @IHB_research. Previously @treutleinlab @ETH and @zellergroup @EMBL
Joined June 2017
Yay, we built a thing! With @Dominik1Klein @dbobrovskiy_ Aviv Regev, @TreutleinLab @GrayCampLab @fabian_theis we use flow matching to enable generalised sc phenotype modeling. From cytokine screens to fate programming and organoid engineering
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RT @AjdDavison: All researchers should fight against this. Every week I try to persuade my students that top papers often have few quantita….
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RT @Dominik1Klein: From cell lines to full embryos, drug treatments to genetic perturbations, neuron engineering to virtual organoid screen….
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Really happy about that one! Also massive thanks to @dbobrovskiy_, who was essential to kick-start the project on our end.
1/ Excited to share CellFlow, a new approach for complex perturbation modeling in single-cell genomics based on flow matching. From cytokine screens to cell fate and organoid engineering, we show CellFlow’s broad power across many diverse tasks. 👉 Paper:
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RT @NadyaAzbukina: Excited to have the opportunity to present our latest results at the #cshl2024brain meeting and get valuable feedback!.S….
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RT @IHB_Research: @zhisong_he, L Dony & @josch_f present🧠#organoids as tools to study brain development, evolution and disease. Just publis….
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Yes, great thread! I think there's enormous potential in ML for biology. But to actually be useful, models need to be evaluated in scenarios that are practically relevant and against sensible baselines.
Nice benchmark of single cell "foundation models" (scGPT, scFoundation) and GEARS (a GNN model) further hyped as "virtual cell models" against linear baselines on perturbation prediction. Long-story short: they can't beat the linear baselines. 1/.
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RT @sinabooeshaghi: Still no new release of the IPhone mini- @Apple's greatest IPhone form factor :/.
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RT @Pseudomanifold: Friends, as the saying approximately goes: "Fortune favours the bald" 👴. 👉 My proposal "HOLES: Higher-Order Learning of….
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RT @TheLutolfLab: Fantastic paper that exemplifies the credo and mission of @IHB_Research: bold and creative young scientists as hands-on l….
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RT @GrayCampLab: Intestinal Immuno-Organoids (IIOs): Striking differences between immune cells in the blood or resident in the intestine wh….
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RT @TreutleinLab: Very exciting to see our single-cell epigenomic atlas of human neural organoids published in @NatureNeuro !!! Fantastic w….
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Great to see this out in print! Absolute dream collab with the brilliant Fides Zenk (@EpiGN_Lab) where we untangle #epigenetic regulation of neural #organoid development. If you're curious, here's the tweetorial 👇@GrayCampLab @TreutleinLab.
🚀Super happy that our latest research has finally been published in @NatureNeuro! We delve into the world of human neural development. Our findings shed light on the dynamic epigenetic changes that guide cell fate from pluripotency to fully differentiated neural cells.🧠🔬🧵.
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RT @EpiGN_Lab: 🚀Super happy that our latest research has finally been published in @NatureNeuro! We delve into the world of human neural de….
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RT @NatureNeuro: Single-cell profiling of H3K27ac, H3K27me3 and H3K4me3 histone modifications from progenitor to differentiated neural fate….
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RT @IdoAmitLab: Single cell enthusiasts, get your flip-flops ready!. Less than 24 hours until the registration to SCG2024 in Corinthia, Gre….
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RT @EpiGN_Lab: 🧬 Dive into #BrainDevelopment as PhD student! Join us for research in #MolecularBiology & #Epigenetics. 🧠✨.🎓 Apply by April….
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RT @fatima_snc: Thrilled to share my PhD work in the @TreutleinLab & @GrayCampLab! .In this 🚨preprint🚨, we present an integrated perspectiv….
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