|
| Status |
Public on Jul 23, 2024 |
| Title |
DGAM_wk8_Bcells |
| Sample type |
SRA |
| |
|
| Source name |
lymph node
|
| Organism |
Macaca mulatta |
| Characteristics |
tissue: lymph node
cell type: B cells
treatment: Untreated
animal id: DGAM
timepoint: wk8
|
| Extracted molecule |
polyA RNA |
| Extraction protocol |
Total RNA was isolated from cell lysates using the RNAzol RT protocol as per the manufacturer’s instructions
RNA Illumina-ready libraries were generated using NEBNext Ultra II RNA Prep reagents (New England BioLabs). Using oligo dT beads (Invitrogen), poly-adenylated RNA was purified and subsequently fragmented, followed by double-stranded cDNA synthesis, end repair, and adapter ligation. The ligated DNA was then barcoded and amplified by a limited cycle PCR and the libraries were sequenced using a paired-end 150-base protocol on either a HiSeq 4000 or a NovaSeq 6000 (Illumina).
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 4000 |
| |
|
| Data processing |
Illumina reads were aligned to the Macaca mulatta genome (Mmul_10 build 102) using the STAR aligner (version 2.7.10a) and counted using HTSeq (2.0.2).
Assembly: Mmu_10 build 102
Supplementary files format and content: raw gene count file
|
| |
|
| Submission date |
Jan 31, 2024 |
| Last update date |
Jul 23, 2024 |
| Contact name |
Slim Fourati |
| E-mail(s) |
slim.fourati@northwestern.edu
|
| Organization name |
Northwestern University
|
| Department |
Medicine
|
| Lab |
Fourati
|
| Street address |
300 E Superior St
|
| City |
Chicago |
| State/province |
Illinois |
| ZIP/Postal code |
60611 |
| Country |
USA |
| |
|
| Platform ID |
GPL23949 |
| Series (2) |
| GSE254781 |
Administration of anti-HIV-1 broadly neutralizing monoclonal antibodies with increased binding affinity to Fcg receptors during acute SHIV infection shapes innate and adaptive cellular immunity [set1] |
| GSE254837 |
Administration of anti-HIV-1 broadly neutralizing monoclonal antibodies with increased binding affinity to Fcg receptors during acute SHIV infection shapes innate and adaptive cellular immunity |
|
| Relations |
| BioSample |
SAMN39710784 |
| SRA |
SRX23484956 |
