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Sample GSM5135120 Query DataSets for GSM5135120
Status Public on Mar 03, 2023
Title CMP scRNA
Sample type SRA
 
Source name Lin-KIT+SCA1-CD34+CD16/32- bone marrow
Organism Mus musculus
Characteristics strain: C57BL/6
cell type: Primary bone marrow
genotype: Wild type
cell population: Lin-KIT+SCA1-CD34+CD16/32-
Treatment protocol Bone marrow was collected from healthy controls and targeted population isolated by FACS.
Extracted molecule polyA RNA
Extraction protocol RNA was isolated and cDNA constructed using the 10x Genomics Single cell 3' Library and Gel Bead Kit according to the manufacturer's protocol.
Libraries were constructed using Chromium Single Cell 3’ library and Gel Bead Kits (10x Genomics) and sequencing performed on a HiSeq 2500 DNA Sequencer (with a 26 base read for cell and molecule barcodes, an 8 base library index read, and a 98 base insert read)
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina HiSeq 2500
 
Data processing Raw sequencing data was processed using RTA (v1.18.64) and Casava (v1.8.2)
Sequencing data was demultiplexed and aligned to the the mm10 genome using the 10x Genomics Cell Ranger software (v2.0.0).
Count matrices were constructed using the Read10X function in Seurat (v2.3.0)
Genome_build: mm10
Supplementary_files_format_and_content: UMI counts
 
Submission date Mar 04, 2021
Last update date Mar 03, 2023
Contact name Dave M Bodine
Organization name National Institutes of Health
Department National Human Genome Research Institute
Street address 49 Convent Drive, 4A19
City Bethesda
State/province MD
ZIP/Postal code 20892
Country USA
 
Platform ID GPL17021
Series (2)
GSE168259 Identification and isolation of hematopoietic stem and progenitor cell populations (scRNA-seq)
GSE168260 Identification and isolation of hematopoietic stem and progenitor cell populations
Relations
BioSample SAMN18142669
SRA SRX10240664

Supplementary file Size Download File type/resource
GSM5135120_CMP_barcodes.tsv.gz 14.7 Kb (ftp)(http) TSV
GSM5135120_CMP_genes.tsv.gz 212.7 Kb (ftp)(http) TSV
GSM5135120_CMP_matrix.mtx.gz 24.7 Mb (ftp)(http) MTX
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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