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ScRNAseq of Hematopoietic stem cell populations from human cord blood

ABSTRACT: scRNAseq of Hematopoietic stem cell populations from human cord blood

PROVIDER: PRJNA996900 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR25374600.fastq.gz	Fastqsanger.gz
	SRR25374601.fastq.gz	Fastqsanger.gz
	SRR25374602.fastq.gz	Fastqsanger.gz
	SRR25374603.fastq.gz	Fastqsanger.gz

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scRNAseq of Hematopoietic stem cell populations from human cord blood

Project description:Single cell transcriptomic profiling (sc RNA-seq) of the two Human Hematopoietic Stem Cell Populations from cord blood: 18LinnegCD34posCD133pos (hereafter CBC1:CD34pos ) and 18LinnegCD34negCD133pos HSCs (hereafter CBC3:CD34neg). Purpose: to compare the single cells transcriptomic profiles of the two Human Hematopoietic Stem Cell Populations: CD34pos HSCs and CD34neg HSCs in order to find unique homing molecules profile. Results provide insight of highly expressed adhesion molecules in CD34neg HSCs and their crucial role in interacting with the bone marrow microenvironment.

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Project description:Genome-wide DNA methylation (DNAm) studies have been extremely useful to understand hematopoiesis in humans. For cell-specific epigenetic studies, fluorescence-activated cell sorting (FACS) is the gold standard technique to isolate homogeneous cell populations of interest. However, in cord blood, the DNAm signature of isolated hematopoietic cells may be significantly altered by heterotopic interactions with nucleated red blood cells (nRBCs) that go undetected during conventional cell sorting. Using the Illumina 450K array, genome-wide DNAm profiles of the following cell types were obtained: (1) T lymphocytes, monocytes, and nRBCs isolated using a “standard” strategy lacking exclusion for erythroid lineage markers; and (2) CD4 and CD8 T lymphocytes, B lymphocytes, Natural Killer (NK) cells, granulocytes, monocytes, and nRBCs isolated using a “stringent” strategy formally excluding erythroid lineage-specific markers. DNAm profiles of cord blood cells isolated by the standard sorting strategy showed significant heterotopic cross-contamination between cell populations, whereas the cord blood cells sorted by the stringent strategy displayed DNAm profiles more consistent with their expected hematopoietic lineage relationships.

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