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Sample GSM7181915 Query DataSets for GSM7181915
Status Public on Nov 12, 2023
Title Bone marrow plasma cells
Sample type SRA
Source name bone marrow
Organism Homo sapiens
Characteristics cell type: plasma cells
tissue: bone marrow
Extracted molecule total RNA
Extraction protocol Human plasma cells were sorted as CD138+CD38hi into ice-cold 0.5% bovine serum albumin (BSA) in PBS.
Cells were processed through the 10x Chromium Single Cell 3′ v2 Library Kit (10× Genomics), according to the manufacturer’s protocol. The channel was loaded with 10,000 cells yielding 6747 single cells for analysis. The cells were then partitioned into gel beads in emulsion in the instrument, where cell lysis and barcoded reverse transcription of RNA occurred, followed by amplification, shearing, and 5′-adapter and sample index attachment.
Library strategy RNA-Seq
Library source transcriptomic single cell
Library selection cDNA
Instrument model Illumina NextSeq 500
Description 10x Genomics
Data processing The demultiplexing, barcoded processing, gene counting and aggregation were made using the Cell Ranger software (
Cell Ranger v5.0.0 was used to create raw read FASTQ files. Genewise reads counts were generated with Cell Ranger v7.0.0 using a custom reference made with the newly published human T2T-CHM13 reference assembly and a custom GTF file specific to human plasma cell usage.
Assembly: T2T-CHM13
Supplementary files format and content: Standard 10x output consisting of tab-separated text files and with read counts in matrix-market format.
Submission date Apr 18, 2023
Last update date Nov 12, 2023
Contact name Gordon K Smyth
Phone (+61 3) 9345 2326
Fax (+61 3) 9347 0852
Organization name Walter and Eliza Hall Institute of Medical Research
Department Bioinformatics
Lab Smyth
Street address 1G Royal Pde
City Parkville
State/province Vic
ZIP/Postal code 3052
Country Australia
Platform ID GPL18573
Series (1)
GSE229957 Gene expression profile at single cell level of plasma cells (PCs) from human bone marrow
BioSample SAMN34234236
SRA SRX20001597

Supplementary file Size Download File type/resource
GSM7181915_barcodes.tsv.gz 36.2 Kb (ftp)(http) TSV
GSM7181915_features.tsv.gz 189.9 Kb (ftp)(http) TSV
GSM7181915_matrix.mtx.gz 41.3 Mb (ftp)(http) MTX
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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