|
| Status |
Public on Mar 21, 2017 |
| Title |
siControl, replicate a |
| Sample type |
SRA |
| |
|
| Source name |
A172_siControl
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: A172
cell type: human glibolastoma cells
transfected with: siControl
replicate: a
|
| Treatment protocol |
A172 cells are transfected with siControl or siADAR1 on the first day, and next day HA-STAU1plasmid was transfected
|
| Growth protocol |
Human glibolastoma A172 cells were cultured in DMEM with 10% FBS
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Cells were harvested and total RNA were extracted by miRNeasy kit (QIAGEN).
Preparation of RNA-seq samples was carried out using SENSE mRNA library prep kit V2 (Lexogen), according to manufacture’s protocol.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NextSeq 500 |
| |
|
| Description |
siControl, replicate a
NCa
|
| Data processing |
RNA-Seq data analyzing was done with rsem(ver. 1.2.3) and Hg19 genome with UCSC known gene set.
edgeR was used for differentail expression analysis
Genome_build: hg19
Supplementary_files_format_and_content: Prosessed files counts for genes estimated by RSEM
|
| |
|
| Submission date |
Aug 10, 2016 |
| Last update date |
May 15, 2019 |
| 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) |
| GSE85455 |
ADAR1 controls apoptosis of stressed cells by inhibiting Staufen-mediated mRNA decay |
|
| Relations |
| BioSample |
SAMN05559749 |
| SRA |
SRX2012087 |
