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Sample GSM4725590 Query DataSets for GSM4725590
Status Public on Aug 13, 2020
Title WT_LPS1
Sample type SRA
 
Source name B cell
Organism Mus musculus
Characteristics Sex: female
strain: C57BL/6J
sorting markers: Thy1.2-F4/80-CD11b-Viability-CD45.1+CD45.2-
tissue: Spleen
stimulation: LPS
Treatment protocol B cells of the indicated genotype were harvested from the spleen 72 hours following LPS or NP-Ficoll innoculation.
Extracted molecule polyA RNA
Extraction protocol Adoptively transferred cells were FACS isolated and resuspended in 1xPBS at 1000 cells/ul for GEM loading.
GEM creation and library preparation was performed according to the 10x recommended protocol.
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina NovaSeq 6000
 
Description WTLPS_UMI_matrix.tsv
Data processing Raw data was demultiplexed into cells and the data mapped to the mouse mm10 genome build using CellRanger v2.1.1.
Biological replicates for WT-LPS and WT-NPFicoll stimulated B cells were aggregated using the CellRanger aggr function with the default parameters.
Genome_build: mm10
Supplementary_files_format_and_content: UMI transcript counts for each cell (columns) and all detected genes (rows)
 
Submission date Aug 12, 2020
Last update date Aug 13, 2020
Contact name Chris Scharer
E-mail(s) cdschar@emory.edu
Organization name Emory University
Department Microbiology and Immunology
Lab Chris Scharer
Street address 1510 Clifton Rd, Suite 3086A
City Atlanta
State/province GA
ZIP/Postal code 30322
Country USA
 
Platform ID GPL24247
Series (1)
GSE136376 scRNA-seq of T cell Independent B cell responses
Relations
BioSample SAMN15804610
SRA SRX8935669

Supplementary data files not provided
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record

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