|
Status |
Public on Apr 26, 2021 |
Title |
27_PB_uns_5pGEX |
Sample type |
SRA |
|
|
Source name |
PB_5pGEX
|
Organism |
Homo sapiens |
Characteristics |
subject status: Relapsing MS subject id: 27 tissue: PB
|
Extracted molecule |
total RNA |
Extraction protocol |
CSF and blood were obtained during diagnostic and research procedures after subjects had provided informed consent; 20 to 30 mL of CSF was centrifuged immediately after collection at 400 × g for 15 min at 4 °C. The pellet was resuspended in ∼80 µL of residual supernatant, and lymphocytes were counted using a hemocytometer. Peripheral blood mononuclear cells (PBMCs) were isolated using cell preparation tubes and resuspended in 2% fetal bovine serum. All experiments were performed immediately with freshly collected, unsorted cells. Sequencing libraries were prepared using 3′ or 5′ library preparation kits (10x Genomics).
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|
|
Library strategy |
RNA-Seq |
Library source |
transcriptomic |
Library selection |
cDNA |
Instrument model |
Illumina NovaSeq 6000 |
|
|
Data processing |
Seurat (v3.1.2) Spliced Transcripts Alignment to a Reference (STAR) algorithm (v2.5.1) SingleR (v1.1.7) DoubletFinder (v2.0.2) Genome_build: GRCh38.v93 Supplementary_files_format_and_content: filtered single-cell gene count matrices
|
|
|
Submission date |
Apr 25, 2021 |
Last update date |
Apr 26, 2021 |
Contact name |
Akshaya Ramesh |
E-mail(s) |
akshaya.rameshv@gmail.com
|
Organization name |
UCSF
|
Street address |
675 Nelson Rising Lane
|
City |
San Francisco |
ZIP/Postal code |
94158 |
Country |
USA |
|
|
Platform ID |
GPL27644 |
Series (1) |
GSE133028 |
CSF B cells in relapsing multiple sclerosis are driven towards an antigen-experienced, inflammatory fate |
|
Relations |
BioSample |
SAMN15865986 |
SRA |
SRX8976912 |