|
| Status |
Public on Oct 31, 2024 |
| Title |
B958-ZHT_Unstim |
| Sample type |
SRA |
| |
|
| Source name |
B958-ZHT
|
| Organism |
Saguinus oedipus |
| Characteristics |
cell line: B958-ZHT
cell type: B cell
treatment: Untreated
|
| Treatment protocol |
Treatments in culture as described above
|
| Growth protocol |
All cell lines grown in R10 (RPMI + 10% heat inactivated FBS)
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Cells were harvested from culture at specified times after specified treatments and enriched to >90% viability by Ficoll gradient prior to single-cell library preparation
Library preparation was performed according to manufacturer's protocol -- 10x Genomics v2 3' Gene Expression Kit
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic single cell |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Description |
10x Genomics; Site: Duke
|
| Data processing |
Read assembly, demultiplexing, barcode processing, and counting were performed using the cellranger pipeline (v3) from 10x Genomics
Assembly: hg38 + NC007605 (EBV Type 1) or hg38 + NC009338 (EBV type 2), depending on viral strain. P3HR1 line is infected with a Type 2 EBV strain. Akata and B958 lines are infected with Type 1 EBV strains
Supplementary files format and content: Tab-separated values (tsv) and matrix (.mtx) files
|
| |
|
| Submission date |
Jul 22, 2024 |
| Last update date |
Oct 31, 2024 |
| Contact name |
Elliott Daniel SoRelle |
| E-mail(s) |
[email protected], [email protected], [email protected]
|
| Organization name |
The University of Michigan
|
| Department |
Microbiology & Immunology
|
| Lab |
Medical Science II 6748
|
| Street address |
1137 Catherine St.
|
| City |
Ann Arbor |
| State/province |
MI |
| ZIP/Postal code |
48109 |
| Country |
USA |
| |
|
| Platform ID |
GPL34729 |
| Series (1) |
| GSE272763 |
Epstein-Barr virus reactivation induces divergent abortive, reprogrammed, and host shutoff states by lytic progression |
|
| Relations |
| BioSample |
SAMN42735023 |
| SRA |
SRX25409405 |
