|
| Status |
Public on Aug 13, 2020 |
| Title |
WT_NPFicoll1 |
| Sample type |
SRA |
| |
|
| Source name |
B cell
|
| Organism |
Mus musculus |
| Characteristics |
Sex: female
strain: C57BL/6J
sorting markers: Thy1.2-F4/80-CD11b-Viability-CD45.1+CD45.2-
tissue: Spleen
stimulation: NP-Ficoll
|
| Treatment protocol |
B cells of the indicated genotype were harvested from the spleen 72 hours following LPS or NP-Ficoll innoculation.
|
| Extracted molecule |
polyA RNA |
| Extraction protocol |
Adoptively transferred cells were FACS isolated and resuspended in 1xPBS at 1000 cells/ul for GEM loading.
GEM creation and library preparation was performed according to the 10x recommended protocol.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Description |
WTNPF_UMI_matrix.tsv
|
| Data processing |
Raw data was demultiplexed into cells and the data mapped to the mouse mm10 genome build using CellRanger v2.1.1.
Biological replicates for WT-LPS and WT-NPFicoll stimulated B cells were aggregated using the CellRanger aggr function with the default parameters.
Genome_build: mm10
Supplementary_files_format_and_content: UMI transcript counts for each cell (columns) and all detected genes (rows)
|
| |
|
| Submission date |
Aug 12, 2020 |
| Last update date |
Aug 13, 2020 |
| Contact name |
Chris Scharer |
| E-mail(s) |
cdschar@emory.edu
|
| Organization name |
Emory University
|
| Department |
Microbiology and Immunology
|
| Lab |
Chris Scharer
|
| Street address |
1510 Clifton Rd, Suite 3086A
|
| City |
Atlanta |
| State/province |
GA |
| ZIP/Postal code |
30322 |
| Country |
USA |
| |
|
| Platform ID |
GPL24247 |
| Series (1) |
| GSE136376 |
scRNA-seq of T cell Independent B cell responses |
|
| Relations |
| BioSample |
SAMN15804612 |
| SRA |
SRX8935671 |
