Science Immunology · 2024 · 29 citations · 60 references
Life SciencesCell BiologyHematologyGene ExpressionStem Cell BiologyTranscriptomicsHematopoietic DevelopmentHematopoietic DifferentiationHematopoietic Stem Cell BiologyHematopoietic Stem CellsPlatelet PhysiologySingle-cell TranscriptomicsAdult Hematopoietic Stem CellsDevelopmental HematopoiesisHematopoietic Lineage SpecificationHematopoietic Stem Cell AgingHematopoietic Stem Cell DifferentiationHematopoietic Stem Cell HeterogeneityHematopoietic Stem Cell Transcriptional RegulationSingle-cell Rna Sequencing
Hematopoietic stem cells (HSCs) reconstitute multilineage human hematopoiesis after clinical bone marrow (BM) transplantation and are the cells of origin of some hematological malignancies. Although HSCs provide multilineage engraftment, individual murine HSCs are lineage biased and contribute unequally to blood cell lineages. Here, we performed high-throughput single-cell RNA sequencing in mice after xenograft with molecularly barcoded adult human BM HSCs. We demonstrated that human individual BM HSCs are also functionally and transcriptionally lineage biased. Specifically, we identified platelet-biased and multilineage human HSCs. Quantitative comparison of transcriptomes from single HSCs from young and aged BM showed that both the proportion of platelet-biased HSCs and their level of transcriptional platelet priming increase with age. Therefore, platelet-biased HSCs and their increased prevalence and transcriptional platelet priming during aging are conserved features of mammalian evolution.
60
STAR: ultrafast universal RNA-seq aligner
Alexander Dobin, Carrie Davis, Felix Schlesinger et al. · Bioinformatics · 2012 · 56.2K citations · Full text
Integrated analysis of multimodal single-cell data
Yuhan Hao, Stephanie Hao, Erica Andersen‐Nissen et al. · Cell · 2021 · 16K citations · Full text
The Molecular Signatures Database Hallmark Gene Set Collection
Arthur Liberzon, Chet Birger, Helga Thorvaldsdóttir et al. · Cell Systems · 2015 · 14.5K citations · Full text
MultiQC: summarize analysis results for multiple tools and samples in a single report
Philip Ewels, Måns Magnusson, Sverker Lundin et al. · Bioinformatics · 2016 · 10.4K citations · Full text
SCENIC: single-cell regulatory network inference and clustering
Sara Aibar, Carmen Bravo González‐Blas, Thomas Moerman et al. · Nature Methods · 2017 · 6.9K citations · Full text