2019
Visualizing structure and transitions in high-dimensional biological data
Moon KR, van Dijk D, Wang Z, Gigante S, Burkhardt DB, Chen WS, Yim K, Elzen AVD, Hirn MJ, Coifman RR, Ivanova NB, Wolf G, Krishnaswamy S. Visualizing structure and transitions in high-dimensional biological data. Nature Biotechnology 2019, 37: 1482-1492. PMID: 31796933, PMCID: PMC7073148, DOI: 10.1038/s41587-019-0336-3.Peer-Reviewed Original ResearchConceptsSingle-cell RNA sequencing datasetsSingle-cell RNA sequencingUnique biological insightsRNA sequencing datasetsGerm layer differentiationMain developmental branchesHigh-throughput technologiesGut microbiome dataRNA sequencingUndescribed subpopulationsHigh-dimensional biological dataSequencing datasetsBiological insightsDevelopmental branches
2009
Detecting intrinsic slow variables in stochastic dynamical systems by anisotropic diffusion maps
Singer A, Erban R, Kevrekidis IG, Coifman RR. Detecting intrinsic slow variables in stochastic dynamical systems by anisotropic diffusion maps. Proceedings Of The National Academy Of Sciences Of The United States Of America 2009, 106: 16090-16095. PMID: 19706457, PMCID: PMC2752552, DOI: 10.1073/pnas.0905547106.Peer-Reviewed Original ResearchMeSH KeywordsAlgorithmsAnisotropyComputer SimulationMarkov ChainsModels, ChemicalNonlinear DynamicsPrincipal Component AnalysisStochastic ProcessesTime FactorsConceptsStochastic dynamical systemsModel reduction approachHigh dimensional dynamic dataDynamical systemsNonlinear independent component analysisLocal principal component analysisSlow variablesMarkov matrixGood observablesDiffusion mapsNetwork simulationAnisotropic diffusionReduction approachData analysis techniqueAnalysis techniquesEigenvectorsDynamic dataObservablesIndependent component analysisComponent analysisSimulationsMatrix
2008
Graph Laplacian Tomography from Unknown Random Projections
Coifman RR, Shkolnisky Y, Sigworth FJ, Singer A. Graph Laplacian Tomography from Unknown Random Projections. IEEE Transactions On Image Processing 2008, 17: 1891-1899. PMID: 18784036, DOI: 10.1109/tip.2008.2002305.Peer-Reviewed Original Research