2024
Inferring Metabolic States from Single Cell Transcriptomic Data via Geometric Deep Learning
Steach H, Viswanath S, He Y, Zhang X, Ivanova N, Hirn M, Perlmutter M, Krishnaswamy S. Inferring Metabolic States from Single Cell Transcriptomic Data via Geometric Deep Learning. Lecture Notes In Computer Science 2024, 14758: 235-252. DOI: 10.1007/978-1-0716-3989-4_15.Peer-Reviewed Original ResearchSingle-cell resolutionMetabolic networksStructure of metabolic networksBiological processesGlobal metabolic networkMetabolic stateMeasure gene expressionGenomic informationTranscriptomic dataTranscriptome dataPost-translationallyEpigenetic modificationsMultimodal regulationGene expressionSingle-cellTissue scaleBiological featuresCellsTranscriptomeMetabolomicsTranscriptionFlux ratesMultiomicsScRNAseqBiology
2023
Mapping the gene space at single-cell resolution with gene signal pattern analysis
Venkat A, Damo M, Joshi N, Krishnaswamy S. Mapping the gene space at single-cell resolution with gene signal pattern analysis. The Journal Of Immunology 2023, 210: 251.03-251.03. DOI: 10.4049/jimmunol.210.supp.251.03.Peer-Reviewed Original ResearchGene-gene relationshipsGene spaceSingle-cell RNA sequencing analysisGene signalsSingle-cell resolutionRNA sequencing analysisMelanoma patient samplesScRNA-seq analysisTranscriptional programsCellular heterogeneityGene representationSequencing analysisCell typesSingle cellsPattern analysisCell subtypesCell subpopulationsMultiscale viewEffector functionsCellsMouse modelComputational methodsGenesCell spacePatient samples
2013
Can CAD cure cancer?
Krishnaswamy S, Bodenmiller B, Pe'er D. Can CAD cure cancer? 2013, 1-2. DOI: 10.1145/2463209.2488910.Peer-Reviewed Original Research