Sandeep Kambhampati
@SandeepKambham2
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Super cool method for spatial transcriptomics data from @uthsavc!.
GASTON, our method to learn “topographic maps” of gene expression, is out now @naturemethods!. IMO the coolest part is a new model of *spatial gradients in sparse data*. As is typical for bio papers, it’s buried in Methods, but see below for a quick outline on the math 👇.
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Super cool work from @rumya_r and @mircoscopy!.
1/ Thrilled to share an advancement in gene therapy from my PhD in @NatureComms! We've developed a new approach to reduce immune responses while maintaining efficiency—paving the way for safer, more effective therapies. Big thanks to @zhangf & @mircoscopy!
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Thanks to all of the coauthors: Luca D’Alessio, @ordabayevy, Fedor Grab, and Stephen Fleming for their contributions and the @insitubiology and Cellarium ML groups for their support!.
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Check out our github ( and tutorial ( for more details! (5/5).
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Users can identify tissue motifs enriched for a particular condition and perform spatial differential expression analysis via a downstream GLM to identify genes associated with condition-enriched motifs. (4/5)
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These representations enable downstream tasks such as motif query, clustering, and gene expression regression to identify genes with high mutual information with tissue structure. (3/5)
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TissueMosaic trains a CNN via a self-supervised learning framework (DINO) to represent tissue architectural motifs from spatial transcriptomic datasets cast as images. (2/5)
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We’re excited to share our latest computational method, TissueMosaic, for comparative analysis of spatial transcriptomic datasets across conditions! (1/5).
biorxiv.org
Spatial transcriptomics allows for the measurement of gene expression within native tissue context, thereby improving our understanding of how cell states are modulated by their microenvironment....
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So excited!!.
Thrilled to be opening my lab this fall at the Ragon Institute! Come work with us to build new tools for immunology.
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RT @AndyRusss: Single-cell or spatial?. Our new technology - Slide-tags - allows both in the same experiment, enabling true single-cell m….
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