|
| Status |
Public on Dec 03, 2014 |
| Title |
W303_snf1_2hr at 35C_vs_+0.7M NaCl at 35C_Replicate2 |
| Sample type |
RNA |
| |
|
| Channel 1 |
| Source name |
W303_snf1 grown at 25C then shifted to 35C for 2hr, then treated with 0.7N NaCl for 30min-t30
|
| Organism |
Saccharomyces cerevisiae |
| Characteristics |
genotype/variation: snf1
|
| Treatment protocol |
Pre-warmed NaCl in YPD added to each culture to a final concentration of 0.7M NaCl
|
| Growth protocol |
S. cerevisiae strains grown in rich YPD medium at 25C in batch-culture with shaking, then heat shock to 35C with indicated time in ch1:source name.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Hot phenol lysis to isolate total RNA
|
| Label |
Oyster 550
|
| Label protocol |
Amino-allyl-dUTP incorporated into generated cDNA; post-synthesis coupling to Oyster dyes
|
| |
|
| Channel 2 |
| Source name |
W303_snf1 grown at 25C then shifted to 35C for 2hr-unstressed t0 min
|
| Organism |
Saccharomyces cerevisiae |
| Characteristics |
genotype/variation: snf1
|
| Treatment protocol |
Pre-warmed NaCl in YPD added to each culture to a final concentration of 0.7M NaCl
|
| Growth protocol |
S. cerevisiae strains grown in rich YPD medium at 25C in batch-culture with shaking, then heat shock to 35C with indicated time in ch1:source name.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Hot phenol lysis to isolate total RNA
|
| Label |
Oyster 650
|
| Label protocol |
Amino-allyl-dUTP incorporated into generated cDNA; post-synthesis coupling to Oyster dyes
|
| |
|
| |
| Hybridization protocol |
Hybridization on Maui hyb station according to Nimblegen and Maui protocols
|
| Scan protocol |
Axon GenePix Scanner
|
| Description |
W303_snf1grown at 25C then shifted to 35C for 2hr then + 0.7M NaCl for 30 min at 35C
|
| Data processing |
Background-subtracted signal intentisties for all probes were normalized by quantile normalization, removing probes with missing signal, media signal within ORFs was compared for each channel, and log2(red/green) values were median-centered such that the average of all values = 0.
|
| |
|
| Submission date |
Apr 23, 2014 |
| Last update date |
Dec 03, 2014 |
| Contact name |
Audrey Gasch |
| E-mail(s) |
agasch@wisc.edu
|
| Phone |
6082650859
|
| Organization name |
university of wisconsin, madison
|
| Department |
genetics
|
| Street address |
425G Henry mall
|
| City |
madison |
| State/province |
wi |
| ZIP/Postal code |
53713 |
| Country |
USA |
| |
|
| Platform ID |
GPL15778 |
| Series (2) |
| GSE56995 |
Snf1 is involved in the aberrant cell cycle induction in cdc14-3 mutant upon NaCl stress in S. cerevisiae |
| GSE60613 |
Coordination and interconnectivity in the inferred stress-activated signaling network from yeast |
|
