|
| Status |
Public on Apr 25, 2022 |
| Title |
ADAR1 Ctrl cell line |
| Sample type |
SRA |
| |
|
| Source name |
IMR90 cell llines
|
| Organism |
Homo sapiens |
| Characteristics |
adar1 status: Ctrl
cell line: IMR90
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was isolated from cells using RNeasy mini kit (Qiagen, 74106) and digested with DNase I (Qiagen, 79254).
The libraries were prepared using a KAPA RNA HyperPrep kit (cat. no. Roche, Cat. no: 07962312001)
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NextSeq 500 |
| |
|
| Description |
ADAR1 Ctrl cell line
|
| Data processing |
RNA-Seq data analysis was done with rsem (ver. 1.2.3) and hg19 genome with ensemble transcriptome information to estimate raw counts and FPKM values
DESeq2 was used for normalization
Genome_build: hg19
Supplementary_files_format_and_content: Prosessed files contains the raw counts and FPKM for each gene
|
| |
|
| Submission date |
Jul 04, 2021 |
| Last update date |
Apr 25, 2022 |
| Contact name |
Priyankara J Wickramasinghe |
| E-mail(s) |
priyaw@wistar.org
|
| Phone |
2154956837
|
| Organization name |
The Wistar Institute
|
| Department |
Bioinformatics
|
| Lab |
Genomics
|
| Street address |
3601 Spruce Street
|
| City |
Philadelphia |
| State/province |
PA |
| ZIP/Postal code |
19104 |
| Country |
USA |
| |
|
| Platform ID |
GPL18573 |
| Series (1) |
| GSE179423 |
ADAR1 downregulation contributes to p16INK4a upregulation independent of RNA editing during senescence |
|
| Relations |
| BioSample |
SAMN20057203 |
| SRA |
SRX11349277 |
