TY - JOUR T1 - Triku: a feature selection method based on nearest neighbors for single-cell data JF - bioRxiv DO - 10.1101/2021.02.12.430764 SP - 2021.02.12.430764 AU - Alex M. Ascensión AU - Olga Ibañez-Solé AU - Inaki Inza AU - Ander Izeta AU - Marcos J. Araúzo-Bravo Y1 - 2021/01/01 UR - http://biorxiv.org/content/early/2021/02/13/2021.02.12.430764.abstract N2 - Feature selection is a relevant step in the analysis of single-cell RNA sequencing datasets. Triku is a feature selection method that favours genes defining the main cell populations. It does so by selecting genes expressed by groups of cells that are close in the nearest neighbor graph. Triku efficiently recovers cell populations present in artificial and biological benchmarking datasets, based on mutual information and silhouette coefficient measurements. Additionally, gene sets selected by triku are more likely to be related to relevant Gene Ontology terms, and contain fewer ribosomal and mitochondrial genes. Triku is available at https://gitlab.com/alexmascension/triku.Competing Interest StatementThe authors have declared no competing interest.scRNA-seqSingle-cell RNA sequencingFSFeature SelectionFEFeature ExtractionPCAPrincipal Component AnalysisNBNegative Binomial(NMI)Normalized Mutual InformationFACSFluorescence Activated Cell SortingGOGene OntologyGOEAGene Ontology Enrichment AnalysisPBMCPeripheral Blood Mononuclear CellsUMAPUniform Manifold Approximation and ProjectionkNNk-Nearest Neighbors ER -