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Sample GSM630450 Query DataSets for GSM630450
Status Public on Dec 09, 2010
Title wt-sv024-b
Sample type RNA
 
Channel 1
Source name wt
Organism Saccharomyces cerevisiae
Characteristics strain (or line): BY4742
genotype/variation: wt
Extracted molecule total RNA
Extraction protocol yeast RNA isolation for robotic amplification v1.0
Label Cy5
Label protocol robot amplification and labeling v1.0
 
Channel 2
Source name refpool
Organism Saccharomyces cerevisiae
Characteristics strain (or line): BY4742
genotype/variation: refpool
Extracted molecule total RNA
Extraction protocol yeast RNA isolation for robotic amplification v1.0
Label Cy3
Label protocol robot amplification and labeling v1.0
 
 
Hybridization protocol Hybridization protocol v2.2
Scan protocol scanning of slides using Agilent G256BA
Features were extracted using Imagene software from Biodiscovery.
Data processing genes, no bg corr, dye corr: as genes, no bg corr, but followed by gene-specific dye bias correction. Identical to genes, no bg corr if the dye bias correction is 0.0, which is the default. So far (jan 2008), we have only dye-bias corrections for yeast.
limma: A software package for the analysis of gene expression microarray data, especially the use of linear models for analysing designed experiments and the assessment of differential expression. Author(s): Gordon Smyth. The limma R package version 2.12.0 is used. P-values are Benjamini-Hochberg FDR corrected.
 
Submission date Nov 29, 2010
Last update date Jun 06, 2013
Contact name Patrick Kemmeren
Organization name UMC Utrecht
Department Department of Molecular Cancer Research
Lab Holstege Lab
Street address Universiteitsweg 100
City Utrecht
State/province Utrecht
ZIP/Postal code 3584 CG
Country Netherlands
 
Platform ID GPL11232
Series (2)
GSE25644 Expression profiling of yeast kinase and phosphatase knockouts
GSE45115 Expression profiling of 376 wildtypes to assess day-to-day variance

Data table header descriptions
ID_REF
VALUE normalized log2 ratio test/ref
Signal Norm_Cy5
Signal Norm_Cy3

Data table
ID_REF VALUE Signal Norm_Cy5 Signal Norm_Cy3
1 0.411087911212576 26349.1 19816
2 0.0877403213792657 344.16 323.853
3 0.0870161304197574 794.761 748.242
4 -0.0292998875097853 52.3523 53.4264
5 0.0543737980157581 814.461 784.336
6 0.195048125315189 182.49 159.413
7 -0.0551213252008003 761.327 790.978
8 -0.0295808148870311 1515.29 1546.68
9 0.0746958021445491 485.377 460.886
10 -0.178083488667233 63.3255 71.6452
11 -0.0123224218705895 5648.28 5696.73
12 0.120824801289407 53.2461 48.9684
13 0.337935039433855 286.165 226.406
14 -0.053415535271202 210.081 218.005
15 -0.116709898466233 4106.25 4452.24
16 -0.013231118290167 73.3071 73.9825
17 -0.0517637887855198 64.602 66.962
18 0.399873897061856 29184.7 22119.8
19 0.122238667597516 22693.5 20849.9
20 -0.11288555042446 1386.06 1498.87

Total number of rows: 15552

Table truncated, full table size 610 Kbytes.




Supplementary file Size Download File type/resource
GSM630450.txt.gz 652.2 Kb (ftp)(http) TXT
Processed data included within Sample table
Processed data are available on Series record

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