|
Status |
Public on Aug 11, 2021 |
Title |
Wild type CARM1/XBP1 cells under control condition, replicate 2 |
Sample type |
SRA |
|
|
Source name |
A1847 cells
|
Organism |
Homo sapiens |
Characteristics |
cell line: A1847 cells condition: WT carm1 status: WT xbp1 status: WT treatment: ctr replicate: 2
|
Extracted molecule |
total RNA |
Extraction protocol |
Total RNA was extracted using RNeasy mini Kit (Qiagen, 74106) and digested with DNase I (Qiagen, 79254) RNA-Seq libraries were constructed using 3’mRNA-seq Library Prep Kit (Lexogen) and sequenced with Illumina NextSeq 500 using 75 nt single read
|
|
|
Library strategy |
RNA-Seq |
Library source |
transcriptomic |
Library selection |
cDNA |
Instrument model |
Illumina NextSeq 500 |
|
|
Description |
WT.ctr.2
|
Data processing |
RNA-Seq data analysis was done with rsem (ver. 1.2.3) and hg19 genome with ensemble transcriptome information DESeq2 was used for differentail expression analysis Genome_build: hg19 Supplementary_files_format_and_content: Prosessed files contains the raw counts for each gene
|
|
|
Submission date |
Aug 29, 2020 |
Last update date |
Aug 11, 2021 |
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 (2) |
GSE157116 |
CARM1 determines endoplasmic reticulum stress response by controlling XBP1 in ovarian cancer [RNA-seq] |
GSE157118 |
CARM1 determines endoplasmic reticulum stress response by controlling XBP1 in ovarian cancer |
|
Relations |
BioSample |
SAMN15940906 |
SRA |
SRX9035211 |