|
| Status |
Public on Dec 25, 2009 |
| Title |
WildType_60hours |
| Sample type |
RNA |
| |
|
| Source name |
Wild Type
|
| Organism |
Saccharomyces cerevisiae |
| Characteristics |
Age: 60 hours
|
| Treatment protocol |
No other treatment.
|
| Growth protocol |
Both strains used were obtained from frozen stocks. Each strain was inoculated in 1 mL SDC and grown overnight. Saturated overnight cultures were then diluted. All samples were incubated at 30oC with shaking (220 rpm). Total RNA was isolated at different time points.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was isolated at each time point according to the acid phenol protocol.
|
| Label |
biotin
|
| Label protocol |
Standard Affymetrix protocol
|
| |
|
| Hybridization protocol |
Standard Affymetrix protocol
|
| Scan protocol |
Standard Affymetrix protocol
|
| Description |
Microarray Experiment is done in UCLA DNA array Core Facility
|
| Data processing |
we applied the Probe-Treatment-Reference (PTR) method coupled with sub-array normalization to the data. We choose target-reference relations illustrated in the paper to do the pairwise normalization.The normalized data are used to fit the three-factor PTR model according to the target-reference relations for each probe-set and the parameters are estimated by least absolute deviations (LAD).
|
| |
|
| Submission date |
Dec 29, 2008 |
| Last update date |
Sep 19, 2009 |
| Contact name |
Huanying Ge |
| E-mail(s) |
hge@usc.edu
|
| Organization name |
Computational biology and bioinformatics
|
| Department |
Biology
|
| Lab |
Lei Li
|
| Street address |
1050 Childs Way, RRI building 408D
|
| City |
Los Angeles |
| State/province |
CA |
| ZIP/Postal code |
90089 |
| Country |
USA |
| |
|
| Platform ID |
GPL2529 |
| Series (1) |
| GSE14227 |
Time-course gene expression profiles of a Saccharomyces cerevisiae wild type and long-lived sch9-delta mutant |
|
