|
Status |
Public on Mar 21, 2017 |
Title |
siControl, replicate b |
Sample type |
SRA |
|
|
Source name |
A172_siControl
|
Organism |
Homo sapiens |
Characteristics |
cell line: A172 cell type: human glibolastoma cells transfected with: siControl replicate: b
|
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 b NCb
|
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 |
SAMN05559748 |
SRA |
SRX2012088 |