|
| Status |
Public on Feb 12, 2012 |
| Title |
21P_Maltose_Control_rep1 |
| Sample type |
RNA |
| |
|
| Source name |
21 Plato wth contol grown on maltose
|
| Organism |
Saccharomyces pastorianus Weihenstephan 34/70 |
| Characteristics |
strain: Weihenstephan 34/70
medium: maltose-based medium
sampling time: stationary phase
replicate no.: 1
|
| Growth protocol |
Fermentation was performed in 2.2 L bioreactor. Dissolved oxygen was monitored with an autoclavable polarographic oxygen electrode. The pH was recorded on-line, but not controlled.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted using RNeasy Mini Kit (Qiagen), according to the protocol for total RNA isolation from yeast.
|
| Label |
Biotin
|
| Label protocol |
The cDNA and cRNA syntheses, labeling and cRNA hybridization on the oligonucleotide Yeast Genome 2.0 Array (Affymetrix, CA) were performed as described in the Affymetrix GeneChip® expression analysis manual.
|
| |
|
| Hybridization protocol |
GeneChip® Hybridization Oven, Fluidics Station FS-450.
|
| Scan protocol |
Scanning was done according to the Affymetrix GeneChip Expression Analysis Technical Manual on a GeneChip Scanner 3000 7G.
|
| Data processing |
Affymetrix Microarray Suite v5.0 was used to generate CEL files from the scanned microarrays. Data analysis was performed by using the statistical open source language R. Data preprocessing was carried out by using the Robust Multichip Average (RMA) method. The function rma is contained in the R/affy package and it implements RMA by correcting the Perfect Match (PM) probes, performing normalization and calculating the expression measure by using median polish method. In order to select genes whose expression levels were related to the experimental factors, Two-Way Analysis Of Variance (ANOVA) was performed. The P-value was corrected for multiple testing by applying the False Discovery Rate (FDR) methodology and genes were selected by imposing a cut-off value of 0.05.
|
| |
|
| Submission date |
Oct 12, 2010 |
| Last update date |
Feb 12, 2012 |
| Contact name |
wanwipa vongsangnak |
| E-mail(s) |
wanwipa@chalmers.se
|
| Phone |
+46 7723847
|
| Organization name |
Chalmers University of Technology
|
| Department |
Department of Chemical and Biological Engineering
|
| Lab |
Systems Biology
|
| Street address |
Kemivägen 10
|
| City |
Gothenburg |
| ZIP/Postal code |
SE-412 96 |
| Country |
Sweden |
| |
|
| Platform ID |
GPL2529 |
| Series (1) |
| GSE24645 |
Revealing the beneficial effect of protease supplementation to high gravity beer fermentations using “–omics” techniques |
|
