|
| Status |
Public on Apr 26, 2021 |
| Title |
10_CSF_uns_5pGEX |
| Sample type |
SRA |
| |
|
| Source name |
CSF_5pGEX
|
| Organism |
Homo sapiens |
| Characteristics |
subject status: Relapsing MS
subject id: 10
tissue: CSF
|
| 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).
|
| |
|
| 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 |
SAMN15865943 |
| SRA |
SRX8976924 |
