From the Robey (MCB), Streets (BioE), and Yosef (EECS) labs. We used single cell multiomics to provide a new perspective on one of the most intensely studied mammalian cell fate decision: the helper vs killer T cell fate decision. https://t.co/YqEFF10o1Q
I am pleased to share the last major work of my PhD in the labs of @airstreets and @YosefLab, in collaboration with @LabRobey, Laura McIntyre, and @LydiaLutes. We used CITE-seq with totalVI analysis to study the drivers of CD4/CD8 T lineage commitment./1 https://t.co/VAHIwMPvYP
Thanks as well to @BioE_BEAST, @BerkeleyBioE, @Cal_Engineer, and @SiebelScholars for your support. And thanks especially to my wonderful advisors Aaron and Nir for this incredible opportunity to contribute to such an exciting, multi-disciplinary effort throughout my PhD./10
I am pleased to share the last major work of my PhD in the labs of @airstreets and @YosefLab, in collaboration with @LabRobey, Laura McIntyre, and @LydiaLutes. We used CITE-seq with totalVI analysis to study the drivers of CD4/CD8 T lineage commitment./1 https://t.co/VAHIwMPvYP
An especially rewarding aspect of this work was pushing beyond atlas-style analysis to investigate a developmental mechanism: we generated a hypothesis through computational analysis and validated it experimentally. Thanks to the entire team that made this possible./9
@SarahJRockwood@CalTriathlon Thank you @SarahJRockwood! I have great memories of talking about research and PhD/MD goals while biking up Wildcat. Congratulations to you too!
Excited to share a more formal look at our work on scvi-tools, in which we describe an overview of the codebase and new features. We hope scvi-tools will set a community standard for the deployment of probabilistic models in single-cell omics
https://t.co/4gK6MsLO3I
TotalVI: A transformative algorithm | Researchers have invented a computer algorithm that uses deep learning to integrate gene and protein data about single cells: https://t.co/0EYvuKUSdb.
@UCBerkeley#BerkeleyEngineering
@timtriche@adamgayoso@airstreets@YosefLab@_romain_lopez_ Hi Tim, we did not do any enzymatic digestions on the spleen or lymph nodes, just mechanical dissociation (see "Cell Preparation" in the Methods of the published version: https://t.co/M4Rm0jaugl).
Thrilled to share that #totalVI (our method for joint analysis of CITE-seq data) is now published in @naturemethods! It has been a fantastic collaboration with @airstreets, @YosefLab, and my co-first author @adamgayoso. Check out the tutorials on https://t.co/WzkQdxmrPC.
Total Variational Inference is a framework for end-to-end analysis of paired transcriptome and protein measurements such as CITE-seq data in single cells from the Streets and Yosef labs. https://t.co/WjmxpJrtce