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Sample GSM4121360 Query DataSets for GSM4121360
Status Public on Feb 08, 2021
Title H8
Sample type SRA
 
Source name 24-month-old
Organism Mus musculus
Characteristics strain: C57BL6/J
sorting antibodies: CD45highCD8+
Extracted molecule total RNA
Extraction protocol Blood was rinsed with PBS containing heparin; brains were dissected, collected in ice‐cold PBS, and cut into small pieces. Tissue was digested in 1 ml Accutase (Merck) per brain at 37 °C for 30 min and triturated through 100 μm cell strainers which were rinsed with 10% FCS in PBS. Cells were purified by a linear 40% Percoll (GE Healthcare) centrifugation step at 650 xg without brakes for 25 min and the myelin top layer and supernatant were discarded. Mononuclear cells were resuspended in FACS buffer (1% BSA and 0.1% sodium azide in PBS) and counted. For scRNA-seq cells from brains of 5 12-month-old and 4 24-month-old mice were pooled into 2 separate samples.
Around 15,000 CD45highCD8+ single-cells were sorted per sample and encapsulated in droplets using 10X Genomics GemCode Technology kit v2 and processed following manufacturer’s specifications.
Chromium single cell 3´ v2 (10XGenomics)
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina NovaSeq 6000
 
Data processing Data were analyzed using Cell Ranger™ v2.0.2 pipelines which is available in 10xGenomics website.
Genome_build: mm10
Supplementary_files_format_and_content: h5; contains data corresponding to the observed molecules, as well as data about the libraries, feature set(s), and barcode lists used for the analysis
Supplementary_files_format_and_content: tar.gz; gene barcode matrices and feature barcode matrix
 
Submission date Oct 15, 2019
Last update date Feb 08, 2021
Contact name Antoine-Emmanuel Saliba
E-mail(s) emmanuel.saliba@helmholtz-hzi.de
Phone +49-931-31-81341
Organization name Helmholtz Institute for RNA-based Infection Research
Street address Josef-Schneider-Straße 2 / D15
City Würzburg
ZIP/Postal code 97080
Country Germany
 
Platform ID GPL24247
Series (1)
GSE138891 Cytotoxic CNS-associated T cells drive axon degeneration in aging and myelin disease
Relations
BioSample SAMN13032453
SRA SRX6996172

Supplementary file Size Download File type/resource
GSM4121360_H8_filtered_feature_bc_matrix.tar.gz 25.3 Mb (ftp)(http) TAR
GSM4121360_H8_molecule_info.h5 129.5 Mb (ftp)(http) H5
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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