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Sample GSM7244789 Query DataSets for GSM7244789
Status Public on Aug 31, 2023
Title HA844, oligodendrocyte co-cultured with T cells separated by insert (TCM), scRNAseq
Sample type SRA
 
Source name Brain
Organism Homo sapiens
Characteristics tissue: Brain
cell type_1: primary Oligodendrocytes
cell type_2: T cells
treatment: Co-culture with T cells separated by an insert (TCM) for 12 hours
Growth protocol OLs were isolated from fresh non-pathological brain tissue from surgical resections for non-tumoral intractable focal epilepsy as previously published (Rone MB et al., 2016). OLs were harvested and plated on poly-L-lysine and extracellular matrix coated wells. During the first 4 days, OLs were allowed to grow in enriched cell medium containing 2ng/mL T3 , 1/50 N1 supplement , 1/50 B27 , 10ng/mL basic fibroblast growth factor and 10ng/mL platelet derived growth factor – AA as previously published (Rone MB et al., 2016). After cell process extension, fresh medium without basic fibroblast growth factor and platelet derived growth factor – AA was used. Cells were treated with the experimental conditions after 8-10 days in vitro
Extracted molecule total RNA
Extraction protocol In brief, media was collected and cells were treated with PBS-EDTA to detach the oligodendrocytes from the bottom of the well. Once cells were visibly detached, the suspension was combined with the collected media and the wells were washed twice with PBS to collect any residual cells and transferred to the same sample tube. The samples were centrifuged at 800rpm for 10min to pellet the live cells and then resuspended in PBS at a concentration of 350 thousand cells per milliliter. Approximately 10,000 cells were used for library construction.
Library was performed according to the manufacter’s instructions (single cell 3’ v2 protocol, 10x Genomics).
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina NovaSeq 6000
 
Description 10x Genomics
Data processing The demultiplexing, barcoded processing, gene counting and aggregation were made using the Cell Ranger software v7.1.0
 
Submission date Apr 28, 2023
Last update date Aug 31, 2023
Contact name Haritha Desu
E-mail(s) desuharitha5@gmail.com
Organization name Centre de recherche du Centre Hospitalier de l'Université de Montréal
Department Neurosciences
Street address 900 R. Saint-Denis
City Montreal
State/province Québec
ZIP/Postal code H2X 0A9
Country Canada
 
Platform ID GPL24676
Series (1)
GSE230828 Activated leukocyte cell adhesion molecule on human oligodendrocytes mediates Th17 cell adhesion
Relations
BioSample SAMN34415095
SRA SRX20124970

Supplementary file Size Download File type/resource
GSM7244789_HA844_TCM_barcodes.tsv.gz 159.9 Kb (ftp)(http) TSV
GSM7244789_HA844_TCM_features.tsv.gz 297.6 Kb (ftp)(http) TSV
GSM7244789_HA844_TCM_matrix.mtx.gz 246.5 Mb (ftp)(http) MTX
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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