|
| Status |
Public on Jan 08, 2024 |
| Title |
A6X003_PBMC_After_Last_Dose_Cycle1 |
| Sample type |
SRA |
| |
|
| Source name |
PBMC
|
| Organism |
Macaca mulatta |
| Characteristics |
sample id: A6X003
tissue: PBMC
treatment: galunisertib
time: After Last Dose Cycle1
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was extracted with the RNeasy kit with on column DNA digestion (Qiagen).
Library preparation was performed using TruSeq Stranded Total RNA with Ribo-Zero Globin
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 4000 |
| |
|
| Description |
A6X003_PBMC_D260-W37_S61
gene_count_matrix.csv
|
| Data processing |
Sequencing data was demultiplexed and trimmed using Trimmomatic v0.36 to remove adapters and low-quality reads.
Trimmed reads were aligned to the Mmul10 reference genome and transcripts quantified using the Hisat2-StringTie pipeline.
Differential gene expression analysis using the quantified gene transcripts was performed with DESeq2 R package
Assembly: Mmul10
Supplementary files format and content: tab-delimited text file includes raw counts for each Sample
|
| |
|
| Submission date |
Oct 06, 2023 |
| Last update date |
Jan 08, 2024 |
| Contact name |
Jinhee Kim |
| E-mail(s) |
jinhee.kim@northwestern.edu
|
| Organization name |
Northwestern University
|
| Department |
Infectious Disease
|
| Lab |
Martinelli
|
| Street address |
676 North St. Clair Street Arkes Suite 2330
|
| City |
Chicago |
| State/province |
IL |
| ZIP/Postal code |
60611 |
| Country |
USA |
| |
|
| Platform ID |
GPL23949 |
| Series (2) |
| GSE244828 |
TGF-beta blockade drives a transitional effector phenotype in T cells reversing SIV latency and decreasing SIV reservoirs in vivo [RNA-seq] |
| GSE244871 |
TGF-beta blockade drives a transitional effector phenotype in T cells reversing SIV latency and decreasing SIV reservoirs in vivo |
|
| Relations |
| BioSample |
SAMN37709374 |
| SRA |
SRX22013306 |
