|
| Status |
Public on Mar 05, 2015 |
| Title |
3134Tet_+dnChd4_48hrs_rep2 |
| Sample type |
RNA |
| |
|
| Source name |
3134Tet-Chd4 cell line with dnChd4 expression, 48 hrs
|
| Organism |
Mus musculus |
| Characteristics |
cell line: 3134 mouse mammary epithelial cell line
|
| Treatment protocol |
For experiments, cells were plated and grown in the above DMEM supplemented with 10% charcoal-dextran-treated FBS and L-glutamine with or without tetracycline for 48 hrs to induce expression of the tetracycline transactivator and dominant negative proteins.
|
| Growth protocol |
Cells were grown in 10%FBS Dulbecco's Modified Eagle's medium (DMEM) supplemented with L-glutamine in a 37 °C incubator with 5% CO2. All tetracycline-regulated cell lines (cells used here) were maintained in media additionally containing 5µg/ml tetracycline to repress expression of the tetracycline transactivator and dominant negative proteins.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA were extracted from cells using Trizol according to the manufacturer's instructions (Invitrogen).
|
| Label |
biotin
|
| Label protocol |
Approximately 100 ng of total RNA were reverse transcribed and labeled by biotin (biotin-labeled cDNA) according to standard Affymetrix protocols used by NCI core facility (LMT/Affymetrix Group, Frederick National Laboratory for Cancer Research, http://atp.ncifcrf.gov/genetics-and-genomics/laboratory-of-molecular-technology/lmt-protocols-and-resources/microarray/service-details/).
|
| |
|
| Hybridization protocol |
Biotin-labeled cDNAs were hybridized overnight to Mouse Gene 1.0 ST arrays. Wash and stain of these GeneChip microarrays was carried out under strictly controlled conditions with the Affymetrix Fluidics Station.
|
| Scan protocol |
GeneChips were scanned with the Affymetrix Scanner.
|
| Description |
Gene expression data from 3134 cells in the presence of tetracycline transactivator and Chd4.
|
| Data processing |
The data were analyzed with Affymetrix® Expression Console™ software version 1.1 using Affymetrix default analysis settings with quantile normalization and general background correction.
|
| |
|
| Submission date |
Mar 05, 2015 |
| Last update date |
Mar 05, 2015 |
| Contact name |
Songjoon Baek |
| Organization name |
NCI / NIH
|
| Department |
CCR
|
| Lab |
LRBGE
|
| Street address |
41 Library Drive
|
| City |
Bethesda |
| State/province |
MD |
| ZIP/Postal code |
20892 |
| Country |
USA |
| |
|
| Platform ID |
GPL6246 |
| Series (2) |
| GSE53585 |
Multiple Overlapping Mammalian Chromatin Remodeling Systems Collaborate Genome-wide at Dynamic Chromatin Transitions |
| GSE66544 |
Multiple Overlapping Mammalian Chromatin Remodeling Systems Collaborate Genome-wide at Dynamic Chromatin Transitions [Affymetrix] |
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