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Sample GSM410836 Query DataSets for GSM410836
Status Public on Jun 02, 2009
Title Prop_4h_C
Sample type RNA
Source name propagation, 4h
Organism Saccharomyces pastorianus
Characteristics strain: CB11
timepoint: 4 hours
Treatment protocol yeast sampling: Triplicate samples of the lager yeast strain CB11 were sampled from a 140 hl (14,000 l) propagation vessel immediately after inoculation and at intervals throughout a 30-hour propagation period. The yeast batch was incubated aerobically in an 8 hl propagation vessel prior to incubation in the principal (140 hl) vessel. Propagation wort (80% malt and 20% maltose adjunct) supplement_protocoled to 0.5 mg l-1 Zn2+ (added as zinc sulphate heptahydrate) and was oxygenated with a ramped supply of molecular oxygen (5-100 l min-1) to give a constant dissolved oxygen concentration of 7-8 mg l-1. Temperature of the wort was maintained throughout at 20°C. Specific gravity of the wort was 17° Plato. Cells and wort were separated by centrifugation at 4°C. Cell pellets for RNA extraction were flash-frozen in liquid nitrogen and stored at -80°C until required.
Extracted molecule total RNA
Extraction protocol RNA extraction was carried out following the method of Lyne et al. RNA yield and purity were determined using an Agilent 2100 Bioanalyser (Agilent Technologies Inc., Santa Clara, California).
Label biotin
Label protocol Biotinylated cRNA was prepared from total RNA with Affymetrix GeneChip Labeling and Control Reagents.
Hybridization protocol Hybridization, washing, staining procedures were conducted with Affymetrix Fluidics Station as described in the Affymetrix GeneChip Expression Analysis Technical Manual.
Scan protocol Scanning done with GeneChip Scanner as described in the Affymetrix GeneChip Expression Analysis Technical Manual.
Description S. pastorianus 4hrs
Data processing CEL files were generated using the GeneChip® operating system (GCOS version 5.0; Affymetrix). The data were analyzed with Affymetrix MAS5 software.
Submission date Jun 01, 2009
Last update date Jun 01, 2009
Contact name Nottingham Arabidopsis Stock Centre (NASC)
Phone +44 (0)115 951 3237
Fax +44 (0)115 951 3297
Organization name Nottingham Arabidopsis Stock Centre (NASC)
Department School of Biosciences, University of Nottingham
Street address Sutton Bonington Campus
City Loughborough
ZIP/Postal code LE12 5RD
Country United Kingdom
Platform ID GPL2529
Series (1)
GSE16376 Differential yeast gene transcription during brewery propagation

Data table header descriptions
VALUE MAS5-calculated signal intensity
ABS_CALL indicating whether the transcript was present (P), absent (A), or marginal (M)
DETECTION P-VALUE p-value that indicates the significance level of the detection call

Data table
AFFX-BioB-5_at 44.9641 P 6.02111e-05
AFFX-BioB-M_at 65.4808 P 4.42873e-05
AFFX-BioB-3_at 46.6002 P 4.42873e-05
AFFX-BioC-5_at 34.0419 P 0.000258358
AFFX-BioC-3_at 52.7208 P 4.42873e-05
AFFX-BioDn-5_at 294.855 P 4.42873e-05
AFFX-BioDn-3_at 770.841 P 4.42873e-05
AFFX-CreX-5_at 1924.97 P 5.16732e-05
AFFX-CreX-3_at 2264.29 P 4.42873e-05
AFFX-DapX-5_at 1.54633 A 0.13134
AFFX-DapX-M_at 2.29721 A 0.275129
AFFX-DapX-3_at 0.205261 A 0.941556
AFFX-LysX-5_at 0.121246 A 0.99238
AFFX-LysX-M_at 1.67558 A 0.340648
AFFX-LysX-3_at 2.29273 A 0.175328
AFFX-PheX-5_at 0.13057 A 0.986196
AFFX-PheX-M_at 0.190434 A 0.953518
AFFX-PheX-3_at 1.03604 A 0.824672
AFFX-ThrX-5_at 0.535166 A 0.737173
AFFX-ThrX-M_at 0.353564 A 0.603116

Total number of rows: 10928

Table truncated, full table size 338 Kbytes.

Supplementary file Size Download File type/resource
GSM410836.CEL.gz 905.7 Kb (ftp)(http) CEL
GSM410836.CHP.gz 58.1 Kb (ftp)(http) CHP
GSM410836.RPT.gz 1008 b (ftp)(http) RPT
Processed data included within Sample table
Processed data provided as supplementary file

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