|
| Status |
Public on Jul 31, 2012 |
| Title |
HeLa_treated_with_siRNA_against_HCFC1_rep1 |
| Sample type |
RNA |
| |
|
| Source name |
adherent HeLa cells
|
| Organism |
Homo sapiens |
| Characteristics |
treatment: HCFC1
cell line: HeLa
|
| Treatment protocol |
Cells were treated with siRNA against HCF-1 or luciferase, as previously described {Julien, 2003 #4}, twice 12h apart using oligofectamine (Invtrogen).
|
| Growth protocol |
Adherent HeLa were grown in Dulbecco’s modified Eagles’s medium (DMEM) with 10% of fetal bovine serum.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA samples were collected after 48h following the first transfection using Qiagen columns.
|
| Label |
biotin
|
| Label protocol |
RNA samples were then labeled using the MessageAmp II-Biotin Enhanced kit (Ambion 1791)
|
| |
|
| Hybridization protocol |
RNA samples were hybridized to GeneChip Human Genome U133 Plus 2.0 Array.
|
| Scan protocol |
The chips were scanned as described in the Affymetrix protocol and the .CEL files were generated.
|
| Description |
HeLa, cycling
|
| Data processing |
3 biological replicates were used for each condition. The intensities of each probeset were normalized and summarized using the Robust Multi-array Analysis algorithm (RMA, {Irizarry, 2003 #114}) and differential expression was assessed using the LIMMA package {Smyth, 2004 #115}.
|
| |
|
| Submission date |
Aug 16, 2011 |
| Last update date |
Jul 31, 2012 |
| Contact name |
Nicolo Riggi |
| Organization name |
CHUV
|
| Department |
Département de Pathologie Expérimentale
|
| Lab |
Institut universitaire de pathologie
|
| Street address |
Bugnon 25
|
| City |
Lausanne |
| State/province |
VD |
| ZIP/Postal code |
1011 |
| Country |
Switzerland |
| |
|
| Platform ID |
GPL570 |
| Series (2) |
| GSE31412 |
Expression changes in HeLa cells treated with siRNA against HCFC1 or control luciferase |
| GSE31419 |
The epigenetic cell-cycle regulator HCF-1 is recruited to active CpG island-containing promoters together with the ZNF143, THAP11(Ronin), YY-1 and GABP transcription factors. |
|
