|
| Status |
Public on Nov 24, 2011 |
| Title |
THP1, replicate 1 |
| Sample type |
RNA |
| |
|
| Source name |
THP-1 AML cells
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: THP-1
treatment: DMSO
leukemia type: monocytic AML
|
| Treatment protocol |
Cells were treated with DMSO
|
| Growth protocol |
Cells were cultured in RPMI-1640 supplemented with 10% fetal bovine serum
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was harvested using the RNeasy Mini Kit from Qiagen
|
| Label |
Biotin
|
| Label protocol |
Biotinylated cRNA were prepared according to the standard Affymetrix protocol.
|
| |
|
| Hybridization protocol |
The cDNA was fragmented, labeled and hybridized to Affymetrix U133A microarrays (Affymetrix, Santa Clara, CA)
|
| Scan protocol |
standard Affymetrix protocol
|
| Data processing |
The data was processed using Bioconductor (affy package 1.30.0) by reading CEL files with default 'ReadAffy()' function. Data was background corrected with RMA, normalized by quantiles method, PM only correction, and then median polished. To account for batch variation, the log2 values were adjusted using ComBat (version 2) in GenePattern with a parametric Empirical Bayes priors distribution estimation method and without covariate analysis.
|
| |
|
| Submission date |
Nov 22, 2011 |
| Last update date |
Nov 28, 2011 |
| Contact name |
Kolja Eppert |
| Organization name |
University Health Network
|
| Street address |
101 College St., rm 8-301
|
| City |
Toronto |
| State/province |
Ontario |
| ZIP/Postal code |
M5G 1L7 |
| Country |
Canada |
| |
|
| Platform ID |
GPL571 |
| Series (1) |
| GSE33892 |
Comparison of TEX and M9-ENL1 cell lines to HL60 and THP1 cell lines |
|
| Relations |
| Reanalysis of |
GSM697694 |
