2024
Gene trajectory inference for single-cell data by optimal transport metrics
Qu R, Cheng X, Sefik E, Stanley III J, Landa B, Strino F, Platt S, Garritano J, Odell I, Coifman R, Flavell R, Myung P, Kluger Y. Gene trajectory inference for single-cell data by optimal transport metrics. Nature Biotechnology 2024, 1-11. PMID: 38580861, PMCID: PMC11452571, DOI: 10.1038/s41587-024-02186-3.Peer-Reviewed Original ResearchGene dynamicsGene programTrajectory inferenceBiological processesCell-cell graphDynamics of genesCell trajectory inferenceSingle-cell RNA sequencingSingle-cell dataCell state transitionsMyeloid lineage maturationDynamics of biological processesGene distributionRNA sequencingPseudotemporal orderingGene processingTrajectories of cellsGenesActivity of biological processesTechnical noiseGroups of cellsLineage maturationCellsConstruct cellsSequence
2019
To Code or Not to Code: What Is the Linc?
Flavell R. To Code or Not to Code: What Is the Linc? The FASEB Journal 2019, 33: 218.1-218.1. DOI: 10.1096/fasebj.2019.33.1_supplement.218.1.Peer-Reviewed Original ResearchNon-canonical proteinsNon-protein codingNon-coding RNAsUnbiased transcriptomics approachMammalian proteinsNovel ORFsRibosome associationUndiscovered proteinsTranscriptomic approachMethionine codonDistinct proteinsFunctional proteinsImportant transcriptsORFProteinEssential roleGenomeAbsolute requirementFASEB JournalGenesRNABacterial infectionsProteinaceous productsMisannotationsCodon