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Sample GSM410833 Query DataSets for GSM410833
Status Public on Jun 02, 2009
Title Prop_0h_C
Sample type RNA
Source name propagation, 0h
Organism Saccharomyces pastorianus
Characteristics strain: CB11
timepoint: 0 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 0hrs
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 251.216 P 5.16732e-05
AFFX-BioB-M_at 356.069 P 4.42873e-05
AFFX-BioB-3_at 217.461 P 7.00668e-05
AFFX-BioC-5_at 441.665 P 4.42873e-05
AFFX-BioC-3_at 610.025 P 4.42873e-05
AFFX-BioDn-5_at 925.239 P 4.42873e-05
AFFX-BioDn-3_at 2586.49 P 4.42873e-05
AFFX-CreX-5_at 6278.55 P 5.16732e-05
AFFX-CreX-3_at 6671.65 P 4.42873e-05
AFFX-DapX-5_at 3.26716 A 0.411373
AFFX-DapX-M_at 6.99493 A 0.175244
AFFX-DapX-3_at 0.705114 A 0.984825
AFFX-LysX-5_at 0.635079 A 0.860538
AFFX-LysX-M_at 2.25568 A 0.574038
AFFX-LysX-3_at 6.26964 A 0.287743
AFFX-PheX-5_at 1.29175 A 0.876428
AFFX-PheX-M_at 0.682447 A 0.960339
AFFX-PheX-3_at 6.04496 A 0.425962
AFFX-ThrX-5_at 1.91144 A 0.699394
AFFX-ThrX-M_at 1.21671 A 0.794268

Total number of rows: 10928

Table truncated, full table size 336 Kbytes.

Supplementary file Size Download File type/resource
GSM410833.CEL.gz 969.3 Kb (ftp)(http) CEL
GSM410833.CHP.gz 2.6 Mb (ftp)(http) CHP
GSM410833.RPT.gz 1.0 Kb (ftp)(http) RPT
Processed data included within Sample table
Processed data provided as supplementary file

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