|
| Status |
Public on Jul 20, 2016 |
| Title |
22-09H043-DMSO |
| Sample type |
SRA |
| |
|
| Source name |
AML patient sample
|
| Organism |
Homo sapiens |
| Characteristics |
modulating agent: DMSO_0.1%
exposure time: 16h
tissue: peripheral blood
|
| Treatment protocol |
compounds were diluted in medium 1:1000 (final DMSO concentration 0.1% in all conditions), compound concentrations as indicated above
|
| Growth protocol |
2-3x10^6 cells in 2-3ml serum-free medium
|
| Extracted molecule |
total RNA |
| Extraction protocol |
cells were harvested after 16 hours, resuspended in 1ml Trizol prior to RNA-extraction
TruSeq RNA v3
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2000 |
| |
|
| Data processing |
Basecalls performed using CASAVA 1.8.2
Sequenced reads were trimmed for adaptor sequence and mapped to the reference genome using CASAVA 1.8.2
Reads Per Kilobase of exon per Megabase of library size (RPKM) were calculated using CASAVA 1.8.2
Genome_build: hg19
Supplementary_files_format_and_content: Tab-delimited text files include RPKM values for each sample. Columns are: Chromosome, Start location, Stop location, Gene, RPKM, base count.
|
| |
|
| Submission date |
Aug 07, 2013 |
| Last update date |
May 15, 2019 |
| Contact name |
Guy Sauvageau |
| Organization name |
Institute for Research in Immunology and Cancer
|
| Street address |
2950, Chemin de Polytechnique
|
| City |
Montreal |
| State/province |
QC |
| ZIP/Postal code |
H3T 1J4 |
| Country |
Canada |
| |
|
| Platform ID |
GPL11154 |
| Series (1) |
| GSE48843 |
RNA-Seq analysis of primary AML specimens exposed to AhR modulating agents |
|
| Relations |
| BioSample |
SAMN02303651 |
| SRA |
SRX332257 |
