|
| Status |
Public on Jun 26, 2008 |
| Title |
p53-/- TAF6 AS2 2 |
| Sample type |
RNA |
| |
|
| Source name |
HCT-116 p53 -/- cell line
|
| Organism |
Homo sapiens |
| Characteristics |
HCT-116 p53-/- cells + Taf6 RNA oligo
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was extracted from the cell lines using RNeasy Midi Kit (Quiagen) according to the instructions provided by the manufacturer
|
| Label |
DIG-UTP
|
| Label protocol |
Digoxigenin-UTP labeled cRNA was generated and amplified from 2 µg of total RNA from each sample using Applied Biosystems NanoAmp RT-IVT Labeling Kit (P/N 4365715) according to the manufacturer’s protocol(P/N 4365710).
|
| |
|
| Hybridization protocol |
Array hybridization was performed for 16 hrs at 55 oC. Pre-Hybridization, Hybridization, antibody binding and Chemiluminescence reaction were performed using Applied Biosystems Chemiluminescence Detection Kit (P/N 4342142) following the manufacturer’s protocol (P/N 4339627).
|
| Scan protocol |
image acquisition and analysis were performed using Applied Biosystems Chemiluminescence Detection Kit (P/N 4342142) and Applied Biosystems 1700 Chemiluminescent Microarray Analyzer (P/N 4338036) following the manufacturer’s protocol (P/N 4339629).
|
| Description |
TAF6 AS2 treated HCT-116 p53-/- cells
|
| Data processing |
Images were auto-gridded and the chemiluminescent signals were quantified, corrected for background, and finally, spot- and spatially-normalized using the Applied Biosystems 1700 Chemiluminescent Microarray Analyzer software v 1.1 (P/N 4336391). Median normalization and Probabilty for a gene to be expressed(A) were calculated with proprietary software.
|
| |
|
| Submission date |
Mar 12, 2008 |
| Last update date |
Jun 20, 2008 |
| Contact name |
Arndt Benecke |
| E-mail(s) |
arndt@ihes.fr
|
| Phone |
+33160926665
|
| Fax |
+33160926609
|
| URL |
http://seg.ihes.fr
|
| Organization name |
Institut des Hautes Etudes Scientifiques & I.R.I.-CNRS
|
| Department |
Integrative Biology
|
| Lab |
Systems Epigenomics
|
| Street address |
35 route des Chartres
|
| City |
Bures-sur-Yvette |
| ZIP/Postal code |
91440 |
| Country |
France |
| |
|
| Platform ID |
GPL1426 |
| Series (1) |
| GSE10795 |
p53 independent TAF6delta target genes. |
|
