|
| Status |
Public on Nov 14, 2008 |
| Title |
spt6 versus wild type, replicate 2 |
| Sample type |
RNA |
| |
|
| Channel 1 |
| Source name |
wild-type strain
|
| Organism |
Saccharomyces cerevisiae |
| Characteristics |
Genetic background S288c, parent strain BY4741
|
| Treatment protocol |
Cells were harvested by 2 min of centrifugation at 3,000 rpm in a tabletop centrifuge at room temperature and immediately frozen in liquid N2
|
| Growth protocol |
Wild-type and mutant cells were grown in YPD medium at 30°C to mid-log phase (1-3 x 107 cells/mL), and then shifted to 37°C for 80 minutes
|
| Extracted molecule |
polyA RNA |
| Extraction protocol |
RNA was extracted by hot phenol followed by ethanol precipitation and mRNA was purified on oligo(dT) cellulose
|
| Label |
Cy3
|
| Label protocol |
Two micrograms of poly(A)+ mRNA was reverse transcribed for cDNA synthesis and labeled with Cy3 and Cy5 dyes as described by Hughes et a., (2000) Cell 102:109-126
|
| |
|
| Channel 2 |
| Source name |
spt6-1004 strain
|
| Organism |
Saccharomyces cerevisiae |
| Characteristics |
Genetic background S288c, parent strain BY4741
|
| Treatment protocol |
Cells were harvested by 2 min of centrifugation at 3,000 rpm in a tabletop centrifuge at room temperature and immediately frozen in liquid N2
|
| Growth protocol |
Wild-type and mutant cells were grown in YPD medium at 30°C to mid-log phase (1-3 x 107 cells/mL), and then shifted to 37°C for 80 minutes
|
| Extracted molecule |
polyA RNA |
| Extraction protocol |
RNA was extracted by hot phenol followed by ethanol precipitation and mRNA was purified on oligo(dT) cellulose
|
| Label |
Cy5
|
| Label protocol |
Two micrograms of poly(A)+ mRNA was reverse transcribed for cDNA synthesis and labeled with Cy3 and Cy5 dyes as described by Hughes et a., (2000) Cell 102:109-126
|
| |
|
| |
| Hybridization protocol |
Hyb procedure was carried out in Hegde et al. (2000) Biotechniques 29: 548-556
|
| Scan protocol |
Microarrays were scanned on an Axon 4000B instrument with GenePix 3.0 software
|
| Description |
30°C to 37°C for 80 minutes
|
| Data processing |
Spatial detrending and variance stabilization normalization of raw microarray data was performed as previously described in Zhang et al. (2004) 3:21
|
| |
|
| Submission date |
Jul 28, 2008 |
| Last update date |
Nov 14, 2008 |
| Contact name |
Gordon Chua |
| E-mail(s) |
[email protected]
|
| Phone |
1-403-220-7769
|
| Fax |
1-403-210-8655
|
| Organization name |
University of Calgary
|
| Department |
Biological Sciences
|
| Lab |
Chua
|
| Street address |
2500 University Drive, N.W.
|
| City |
Calgary |
| State/province |
Alberta |
| ZIP/Postal code |
T2N1N4 |
| Country |
Canada |
| |
|
| Platform ID |
GPL7078 |
| Series (1) |
| GSE12272 |
Evidence that cryptic promoters occur extensively throughout the Saccharomyces cerevisiae genome |
|
