|
| Status |
Public on Feb 25, 2013 |
| Title |
Kelly_DMSO_24h_Repl1 |
| Sample type |
RNA |
| |
|
| Source name |
Kelly cell line, DMSO treated
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: Kelly
treatment: DMSO
time: 24h
replicate: 1
|
| Treatment protocol |
Kelly and Be(2)-C cells were treated in triplicate with either DMSO or JQ1 1μM for 24 hours
|
| Growth protocol |
Kelly and Be(2)-C cells were maintained in DMEM supplemented with 10% fetal bovine serum and 1% penicillin-streptomycin with glutamine
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was extracted using Qiagen Rneasy Mini Kit (74104)
|
| Label |
biotin
|
| Label protocol |
Biotin: GeneChip® 3' IVT Express labeling kit
|
| |
|
| Hybridization protocol |
FS450_0002 for theHuman GeneChip PrimeView arrays
|
| Scan protocol |
Affymetrix GeneChip Scanner 7G
|
| Description |
The samples were profiled using the Affymetrix PrimeView Human Gene Expression Array (Affymetrix) at Beth Israel Deaconess Medical Center (Boston, MA, USA).
Kelly_CT_SF01
|
| Data processing |
GeneChip Command Console AGCC software 3.2.4 was used to generate the CEL files. The computational pipeline was run on the bioinformatics platform GenomeSpace (http://www.genomespace.org/). Data were extracted from the CEL files and preprocessed by applying RMA and the quantile normalization procedures implemented in the ExpressionFileCreator module of the GenePattern software platform (Broad Institute, http://www.broadinstitute.org/cancer/software/genepattern/).
|
| |
|
| Submission date |
Jan 09, 2013 |
| Last update date |
Feb 25, 2013 |
| Contact name |
Gabriela Alexe |
| E-mail(s) |
[email protected]
|
| Organization name |
Broad Institute
|
| Department |
Computational Biology and Bioinformatics
|
| Street address |
415 Main St.
|
| City |
Cambridge |
| State/province |
MA |
| ZIP/Postal code |
02142 |
| Country |
USA |
| |
|
| Platform ID |
GPL15207 |
| Series (1) |
| GSE43392 |
Targeting MYCN in Neuroblastoma by BET Bromodomain Inhibition |
|
