|
| Status |
Public on Aug 01, 2011 |
| Title |
HK2-4031 at 10nM biological replicate 1 |
| Sample type |
RNA |
| |
|
| Source name |
Hep3B liver cancer cells
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: Hep3B liver cancer cells
sirna: HK2-4031
sirna concentration: 10nM
biological replicate: 1
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was purified 48 hours post-transfection using the RNeasy mini kit from Qiagen.
|
| Label |
biotin
|
| Label protocol |
Biotinylated cRNA were prepared according to the standard Affymetrix protocol.
|
| |
|
| Hybridization protocol |
Following fragmentation, cRNA was hybridized on GeneChip Human U133plus Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station.
|
| Scan protocol |
The arrays were scanned using an Affymetrix GeneChip Scanner 3000
|
| Description |
HK2-4031_10nM-1
HK2-4031_10nMsiRNA-0nMas-13.CEL
|
| Data processing |
Affymetrix CEL files were normalized in Bioconductor using the RMA method. Differentially regulated genes were identified using a moderated t-test. False discovery rate adjusted P-values were calculated using the method of Benjamini and Hochberg.
|
| |
|
| Submission date |
Apr 21, 2011 |
| Last update date |
Aug 01, 2011 |
| Contact name |
Daniel R Caffrey |
| Organization name |
UMASS Medical School
|
| Street address |
364 Plantation St
|
| City |
Worcester |
| State/province |
MA |
| ZIP/Postal code |
01605 |
| Country |
USA |
| |
|
| Platform ID |
GPL9324 |
| Series (1) |
| GSE28786 |
siRNA off-target effects can be reduced at concentrations that match their individual potency |
|
