|
| Status |
Public on Nov 24, 2011 |
| Title |
HL60, replicate A2 |
| Sample type |
RNA |
| |
|
| Source name |
HL60 AML cells
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: HL-60
treatment: DMSO
leukemia type: promyelocytic AML
|
| Treatment protocol |
Cells were treated with DMSO
|
| Growth protocol |
HL-60 cells were cultivated in RPMI medium with 10 % FCS, 1 % penecillin and 1 % streptavidin at 37°C and 5 % CO2
|
| Extracted molecule |
total RNA |
| Extraction protocol |
TriZol extraction of total RNA was performed according to the manufacturer's instructions.
|
| 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 |
GSM405502 |
