|
Status |
Public on Jan 08, 2024 |
Title |
08M134_PBMC_After_First_Dose_Cycle1 |
Sample type |
SRA |
|
|
Source name |
PBMC
|
Organism |
Macaca mulatta |
Characteristics |
sample id: 08M134 tissue: PBMC treatment: galunisertib time: After First 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
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|
|
Library strategy |
RNA-Seq |
Library source |
transcriptomic |
Library selection |
cDNA |
Instrument model |
Illumina HiSeq 4000 |
|
|
Description |
08M134_PBMC_D246-W35_S48 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
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|
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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 |
SAMN37709385 |
SRA |
SRX22013295 |