|
| Status |
Public on Mar 04, 2013 |
| Title |
G1E_GATA1, biological rep 1 |
| Sample type |
RNA |
| |
|
| Source name |
GATA1-null G1E_GATA1-ER
|
| Organism |
Mus musculus |
| Characteristics |
cell line background: G1E
cell type: GATA1-deficient proerythroblast cells with erythrocyte differentiation potential
genotype/variation: expressing GATA1-ER
treated with: 100 nM estradiol for 24 hrs
|
| Treatment protocol |
G1E cells expressing wild type or mutant versions of GATA1-ER were induced to differentiate for 24 hours with 100 nM estradiol.
|
| Growth protocol |
G1E cells were cultured as described previously [PMID: 9032291].
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Trizol extraction of total RNA followed by purification via Qiagen RNeasy kit was performed according to the manufacturer's instructions.
|
| Label |
biotin
|
| Label protocol |
Affymetrix standard protocol. University of Pennsylvania Microarray Facillity.
|
| |
|
| Hybridization protocol |
Affymetrix standard protocol. University of Pennsylvania Microarray Facillity.
|
| Scan protocol |
Affymetrix standard protocol. University of Pennsylvania Microarray Facillity.
|
| Description |
GATA1_1
|
| Data processing |
Affymetrix .CEL (probe intensity) files were imported into Partek Genomics Suite v6.6 where RMA normalization was performed yielding log2-transformed expression intensities for all transcript clusters on the array. RMA results were filtered to exclude control probesets. To find differentially expressed genes, a 1-way ANOVA was performed across the five conditions (each with three replicates) and all ten possible pairwise comparisons were performed, each yielding a p-value and a fold-change for all genes on the array. All p-values were corrected for False Discovery Rate (FDR) by the method of Benjamini and Hochberg as implemented in Partek. Genes with a p-value of less than 0.05 and a fold change more than or equal to 1.5 were used for further analysis. University of Pennsylvania Microarray Facillity.
|
| |
|
| Submission date |
Jan 08, 2013 |
| Last update date |
Mar 05, 2013 |
| Contact name |
Amy E. Campbell |
| E-mail(s) |
amy.e.campbell@cuanschutz.edu
|
| Phone |
303-724-1651
|
| Organization name |
University of Colorado Anschutz Medical Campus
|
| Street address |
12801 E 17th Ave, Room L18-10403G
|
| City |
Aurora |
| State/province |
CO |
| ZIP/Postal code |
80045 |
| Country |
USA |
| |
|
| Platform ID |
GPL6246 |
| Series (1) |
| GSE43356 |
Expression data from G1E erythroid cells expressing GATA1 mutants |
|
