|
| Status |
Public on Jan 11, 2023 |
| Title |
Patient 1 |
| Sample type |
SRA |
| |
|
| Source name |
peripheral blood
|
| Organism |
Homo sapiens |
| Characteristics |
tissue: peripheral blood
cell type: CD4
treatment: HAART
|
| Treatment protocol |
samples were not treated correspond to primary cells isolated ex vivo
|
| Growth protocol |
n/a
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was obtained using the Qiagen RNeasy Micro Kit
RNA-Seq libraries from mDC were generated as previously described by Trombetta JJ et al Current Protocols in molecular biology, 2014
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NextSeq 500 |
| |
|
| Description |
S01
|
| Data processing |
FASTQ files were obtained by Illumina bcl2fastq2.
STAR and RSEM were used to align to GRCh38 and to calculate the raw counts for genes, respectively.
Assembly: GRCh38
Supplementary files format and content: raw counts and TPM in csv
|
| |
|
| Submission date |
Nov 22, 2022 |
| Last update date |
Jan 11, 2023 |
| Contact name |
Ce Gao |
| E-mail(s) |
[email protected]
|
| Organization name |
Ragon Institute of MGH, MIT and Harvard
|
| Lab |
Yu/Lichterfeld Labs
|
| Street address |
400 Technology Square
|
| City |
Cambridge |
| State/province |
MA |
| ZIP/Postal code |
02139 |
| Country |
USA |
| |
|
| Platform ID |
GPL18573 |
| Series (1) |
| GSE218587 |
Cooperation between cGAS and RIG-I sensing pathways enables improved innate recognition of HIV-1 by myeloid dendritic cells in elite controllers |
|
| Relations |
| BioSample |
SAMN31840957 |
| SRA |
SRX18353208 |
