2024
Supervised latent factor modeling isolates cell-type-specific transcriptomic modules that underlie Alzheimer’s disease progression
Hodgson L, Li Y, Iturria-Medina Y, Stratton J, Wolf G, Krishnaswamy S, Bennett D, Bzdok D. Supervised latent factor modeling isolates cell-type-specific transcriptomic modules that underlie Alzheimer’s disease progression. Communications Biology 2024, 7: 591. PMID: 38760483, PMCID: PMC11101463, DOI: 10.1038/s42003-024-06273-8.Peer-Reviewed Original ResearchConceptsGene programAlzheimer's diseaseLate-onset Alzheimer's diseaseAD risk lociCell type-specificSingle-nucleus RNA sequencingRisk lociAD brainAlzheimer's disease progressionSnRNA-seqRNA sequencingAD pathophysiologySignaling cascadesTranscriptome modulationProgressive neurodegenerative diseaseCell-typeGWASNeurodegenerative diseasesNeuronal lossGlial cellsTranscriptomeLociGenesPseudo-trajectoriesDisease progression
2023
Graph Fourier MMD for Signals on Graphs
Leone S, Venkat A, Huguet G, Tong A, Wolf G, Krishnaswamy S. Graph Fourier MMD for Signals on Graphs. 2023, 00: 1-6. DOI: 10.1109/sampta59647.2023.10301384.Peer-Reviewed Original ResearchState-space characterizationEmbedding of distributionsRNA-sequencing data analysisSingle-cell RNA-sequencing data analysisMeaningful gene clustersPairs of distributionsOptimization problemProbability distributionGene clusterEuclidean spaceSpace characterizationAnalytical solutionSuch graphsGene embeddingsDisconnected graphsScale invarianceGene selectionGraphSuch distancesEmbeddingGenesNovel typeDistributionNumerous methodsBenchmark datasets