|
| Status |
Public on Aug 02, 2024 |
| Title |
lymphocytes, GFP+, Donor 146M (miRNA) |
| Sample type |
SRA |
| |
|
| Source name |
Human primary CD4+ T-cells
|
| Organism |
Homo sapiens |
| Characteristics |
individual: 146M
cell type: Human primary CD4+ T-cells
treatment: Infected/GFP+
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was isolated from sorted cell populations using Rneasy kit from QIAGEN
RNA libraries were prepared for sequencing using standard Illumina protocols
|
| |
|
| Library strategy |
miRNA-Seq |
| Library source |
transcriptomic |
| Library selection |
size fractionation |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Description |
M146_GFPp
|
| Data processing |
Reads were aligned to the reference genome version GRCh38 using STAR version 2.5.1b
Raw counts for each feature from GRCh38 ENSEMBL v98 annotation file were extracted using FeatureCounts v1.6.0
DESeq2 version 1.24.0 was used to normalize gene readcounts and compute differential expression between conditions
GRCh38
Assembly: Matrix table with normalized gene counts for every miRNA and every sample
|
| |
|
| Submission date |
Nov 07, 2023 |
| Last update date |
Aug 06, 2024 |
| Contact name |
Eric A Cohen |
| Organization name |
IRCM
|
| Lab |
Human Retrovirology
|
| Street address |
110 Ave des Pins Ouest
|
| City |
Montreal |
| State/province |
Quebec |
| ZIP/Postal code |
H2W1R7 |
| Country |
Canada |
| |
|
| Platform ID |
GPL24676 |
| Series (2) |
| GSE247194 |
miRNA expression profiles in productively HIV-1 infected and bystander primary human CD4+ T-cells |
| GSE247196 |
Productively HIV-1 infected and bystander primary human CD4+ T-cells |
|
| Relations |
| BioSample |
SAMN38146082 |
| SRA |
SRX22401450 |
