|
| Status |
Public on Jun 05, 2008 |
| Title |
hESC_KSR_RA_2 |
| Sample type |
RNA |
| |
|
| Source name |
NIH WA-09 (H9 hESCs)
|
| Organism |
Homo sapiens |
| Characteristics |
status after 24hrs treatment
KSR (serum-replacement medium 15%)
Differentiation Assay
RA
|
| Extracted molecule |
total RNA |
| Extraction protocol |
total RNA was extracted from cell pellet using Trizol (invitrogen)
|
| Label |
biotin
|
| Label protocol |
200ng ot total RNA were labeled using the Illumina Total Prep RNA Amplification Kit (Ambion, cat#AMIL1791) according the manufacturer's instructions
|
| |
|
| Hybridization protocol |
750ng of labeled cRNA were hybridized on the Illumina Human Ref-8 V2.0 arrays according to Illumina's instructions.
|
| Scan protocol |
according to manufacturer
|
| Description |
Illumina human ref-8V2.0
|
| Data processing |
The raw gene level Signal's where normalized using the standard quantile normalization from the bioconductor limma package. Then the data was transformed using the generalized logarithm function glog(x)=(asinh(x)-log(2))/log(2). Note: the (1/log(2)) term makes this glog asymptotically equivalent to log base 2.
|
| |
|
| Submission date |
Apr 30, 2008 |
| Last update date |
Jun 05, 2008 |
| Contact name |
Agnes Viale |
| E-mail(s) |
vialea@mskcc.org
|
| Phone |
212 639 3031
|
| Fax |
212 717 3053
|
| Organization name |
Memorial Sloan Kettering Cancer Center
|
| Department |
Molecular Biology
|
| Lab |
Genomics Core Laboratory
|
| Street address |
1275 York Avenue
|
| City |
New York |
| State/province |
NY |
| ZIP/Postal code |
10021 |
| Country |
USA |
| |
|
| Platform ID |
GPL6104 |
| Series (1) |
| GSE11302 |
Gene expression analysis upon exposure of hESCs to novel set of self-renewal and differentiation compounds |
|
