|
| Status |
Public on May 17, 2024 |
| Title |
Cat_21-005 VDJ |
| Sample type |
SRA |
| |
|
| Source name |
Blood leukocytes
|
| Organism |
Felis catus |
| Characteristics |
breed: Domestic shorthair
age: 1 year
Sex: female
cell type: Blood leukocytes
genotype: healthy
|
| Extracted molecule |
polyA RNA |
| Extraction protocol |
Chromium Next GEM Single Cell 5’ Kit v2 (10x Genomics) - separate amplification of TRA/TRB and TRG/TRD receptor chains
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic single cell |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Data processing |
Cell Ranger version 7.1
Seurat v5 & custom R scripts
Assembly: Felis_catus_9.0
Supplementary files format and content: Cell Ranger GEX output: raw_feature_bc_matrix and filtered_feature_bc_matrix
Supplementary files format and content: Cell Ranger VDJ output: all_contig_annotations.csv (one each for AB & GD libraries)
|
| |
|
| Submission date |
May 13, 2024 |
| Last update date |
May 17, 2024 |
| Contact name |
Stefan Matthias Keller |
| E-mail(s) |
smkeller@ucdavis.edu
|
| Organization name |
University of California, Davis
|
| Department |
Pathology, Immunology, Microbiology
|
| Street address |
One Shields Avenue
|
| City |
Davis |
| State/province |
California |
| ZIP/Postal code |
95616 |
| Country |
USA |
| |
|
| Platform ID |
GPL28702 |
| Series (1) |
| GSE267355 |
Single cell RNA-sequencing of feline peripheral immune cells with V(D)J repertoire and cross species analysis of T lymphocytes |
|
| Relations |
| BioSample |
SAMN41384745 |
| SRA |
SRX24539580 |
