First author

AAnet resolves a continuum of spatially-localized cell states to unveil tumor complexity
AAnet is a neural network for nonlinear archetypal analysis of single-cell data.

A Venkat*, S Youlten*,…,S Krishnaswamy, CL Chaffer. Cancer Discovery In Revision.
Paper Code CSHL Systems Immunology 2021 Manuscript in Revision
AAnet resolves a continuum of spatially-localized cell states to unveil tumor complexity
Beta cells are essential drivers of pancreatic ductal adenocarcinoma development
Disentangling the origin of β cells misexpressing pro-tumorigenic hormones in the context of obesity and other stressors.

C Garcia*, A Venkat*, DC McQuaid*,…,S Krishnaswamy, MD Muzumdar. In Revision.
Paper Yale Single Cell Symposium 2022 Manuscript in Revision
Beta cells are essential drivers of pancreatic ductal adenocarcinoma development
Directed Scattering for Knowledge Graph-based Cellular Signaling Analysis
DSAE employs a directed version of a geometric scattering transform for embedding nodes of directed graphs.

A Venkat*, J Chew*, F Cardoso Rodriguez, CJ Tape, M Perlmutter, S Krishnaswamy. ICASSP 2024.
Paper Code GSP 2023 Manuscript Published
Directed Scattering for Knowledge Graph-based Cellular Signaling Analysis
Mapping the gene space at single-cell resolution with gene signal pattern analysis
GSPA learns gene-gene relationships from single-cell data by embedding the gene space.

A Venkat, S Leone, S Youlten, E Fagerberg, J Attanasio, NS Joshi, S Krishnaswamy. Nature Computational Science 2024.
Paper Blog Post Code ISMB 2021 Immunology 2023 Manuscript Published
Mapping the gene space at single-cell resolution with gene signal pattern analysis
Multiscale geometric and topological analyses for characterizing and predicting immune responses from single cell data
This review describes approaches to characterize immune heterogeneity at multiple resolutions.

A Venkat, D Bhaskar, S Krishnaswamy. Cell Trends in Immunology.
Paper Manuscript Published
Multiscale geometric and topological analyses for characterizing and predicting immune responses from single cell data
Single-cell analysis reveals transcriptional dynamics in primary parathyroid tissue
The first parathyroid single-cell atlas of primary parathyroid tissue.

A Venkat*, M Carlino*, B Lawton*,…,S Krishnaswamy, D Krause. Genome Research 2024.
Paper HypoPara Think Tank 2022 Code Manuscript Published
Single-cell analysis reveals transcriptional dynamics in primary parathyroid tissue