|
| Status |
Public on Oct 20, 2011 |
| Title |
snf1_C_10 |
| Sample type |
RNA |
| |
|
| Source name |
snf1_C_10
|
| Organism |
Saccharomyces cerevisiae |
| Characteristics |
genotype: sfn1Δ
medium: C-lim
|
| Treatment protocol |
biomass samples were taken at steadystate, cooled down imeediately and centrifuged with cooling, The cell prllets were frozen in liquid nitrogen
|
| Growth protocol |
strains were grown in 1.2 l bioreactor (with working olume 0.5 l) at 30°C, pH 5.0 and aerobically. The C-lim contains 10 g/L glucose and the N-lim medium contains 1g/L amonia sulfate, dilution rate 0.1h-1
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was isolated from frozen cell pellets using Qiagen Rnaesy Kit (Qiagen)
|
| Label |
biotin
|
| Label protocol |
Labelling was done according to the Affymetrix GeneChip Expression Analysis Technical Manual.
|
| |
|
| Hybridization protocol |
Hybridization was done according to the Affymetrix GeneChip Expression Analysis Technical Manual on a GeneChip Fluidics Station 450.
|
| Scan protocol |
Scanning was done according to the Affymetrix GeneChip Expression Analysis Technical Manual on a GeneChip Scanner 3000.
|
| Data processing |
Affymetrix CEL-data files were preprocessed using the statistical language and environment R Language version 2.6. The probe intensities were normalised for background using the robust multiarray average (RMA) method (Irizarry, 2003) using only perfect match (PM) probes. Normalization was performed subsequently using the qspline algorithm (Workman, 2002). Gene expression values were calculated from the PM probes with the medianpolish summary method (Irizarry, 2003). All statistical preprocessing methods were used by invoking them through the affy package (Gautier, 2004).
|
| |
|
| Submission date |
Sep 28, 2010 |
| Last update date |
Oct 20, 2011 |
| Contact name |
Jie Zhang |
| E-mail(s) |
[email protected]
|
| Phone |
+45 52710377
|
| Organization name |
Technical University of Denmark
|
| Department |
CFB
|
| Lab |
SBTY
|
| Street address |
Kemitorvet 220
|
| City |
Kgs. Lyngby |
| ZIP/Postal code |
2800 |
| Country |
Denmark |
| |
|
| Platform ID |
GPL2529 |
| Series (1) |
| GSE24421 |
Interaction of Snf1 with TORC1 in yeast Saccharomyces cerevisiae |
|
