|
Status |
Public on Sep 13, 2009 |
Title |
hnRNP H-KD mRNA-Seq |
Sample type |
SRA |
|
|
Source name |
293T cells
|
Organism |
Homo sapiens |
Characteristics |
cell l ine: 293T
|
Treatment protocol |
Day 0: plate cells in 10cm dishes. Day 1: transfect 20nM siRNA using Dharmafect 1 (Dharmacon) as transfection reagent. Day 2: transfect 50nM siRNA using Dharmafect 1 (Dharmacon) as transfection reagent. Day 4: harvest cells. Transfections were conducted using protocols suggested by the manufacturer of the transfection reagent.
|
Growth protocol |
293T cells were cultured with D-MEM medium supplemented with 10% fetal bovine serum.
|
Extracted molecule |
polyA RNA |
Extraction protocol |
mRNA is purified from total RNA with oligo-dT magnetic beads. cDNA is synthesized with random primer priming. ds-cDNA is sequenced using Illumina Genome Analyzers as recommended by the manufacturer.
|
|
|
Library strategy |
RNA-Seq |
Library source |
transcriptomic |
Library selection |
cDNA |
Instrument model |
Illumina Genome Analyzer |
|
|
Description |
n/a
|
Data processing |
short reads mapping to human genome hg18 using Eland
|
|
|
Submission date |
Jun 16, 2009 |
Last update date |
May 15, 2019 |
Contact name |
Xinshu Xiao |
E-mail(s) |
gxxiao@ucla.edu
|
Organization name |
MIT
|
Department |
Biology
|
Lab |
Chris Burge Lab
|
Street address |
77 Mass Ave. MIT, 68-211
|
City |
Cambridge |
State/province |
MA |
ZIP/Postal code |
02139 |
Country |
USA |
|
|
Platform ID |
GPL9052 |
Series (1) |
GSE16642 |
Illumina mRNA-Seq of control and hnRNP H knockdown in 293T cells |
|
Relations |
SRA |
SRX012334 |
BioSample |
SAMN00004610 |