|
| Status |
Public on Dec 03, 2012 |
| Title |
induced clone of GTF2IRD1, biological replicate1 |
| Sample type |
RNA |
| |
|
| Source name |
inducible ES stable cell line grown in medium deprived of Tetracycline
|
| Organism |
Mus musculus |
| Characteristics |
cell type: Embryonic Stem (ES) cells
|
| Treatment protocol |
The growth of each inducible clone was performed in medium deprived of Tetracycline for 17 or 24 hours, while the control clones and of parental cell line EB3 were grown in medium containing Tetracycline and the total RNA was extracted
|
| Growth protocol |
The growth of each inducible clone was performed in medium deprived of Tetracycline for 17 or 24 hours, while the control clones were grown in medium containing Tetracycline and the total RNA was extracted. Total RNA was extracted from parental cell line EBRTcH3 (EB3) grown in medium containing Tetracycline.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNAs from all inducible ES clones and from EB3 were purified by QIAshredder (Qiagen spa, Milano, Italy, catalog no. 79656) and extracted with RNeasy Protect Mini Kit (Qiagen, catalog no. 74126) using standard conditions.
|
| Label |
biotin
|
| Label protocol |
Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
|
| |
|
| Hybridization protocol |
Biotinylated cRNAs were generated using the GeneChip IVT labelling kit (Affymetrix). 20µg of Biotinylated cRNA was fragmented and 10µg hybridised to the Affymetrix GeneChip Mouse Genome 430_2 array for 16hrs at 45°C using an Affymetrix GeneChip Fluidics Station 450 according to the manufacturer’ standard protocols.
|
| Scan protocol |
GeneChips were scanned using the GeneChip® Scanner 3000 .
|
| Description |
GTF2IRD1_t24_1.CEL
Gene expression data from mouse inducible ES stable clone
|
| Data processing |
The data were analyzed with the Bioconductor package Affy using RMA method for normalizing and summarizing probe level intensity measurements.
|
| |
|
| Submission date |
Sep 09, 2011 |
| Last update date |
Dec 03, 2012 |
| Contact name |
Rossella De Cegli |
| E-mail(s) |
decegli@tigem.it
|
| Phone |
08119230692
|
| Organization name |
Tigem
|
| Street address |
Via Campi Flegrei 34
|
| City |
Pozzuoli |
| ZIP/Postal code |
80078 |
| Country |
Italy |
| |
|
| Platform ID |
GPL1261 |
| Series (1) |
| GSE32015 |
Expression data from inducible ES stable cell lines |
|
