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Sample GSM630382 Query DataSets for GSM630382
Status Public on Dec 09, 2010
Title wt-ic008-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 mRNA extraction v1.3
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 Tecan HS4800 hybridization
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 -0.591798844768908 27741.3 41809.6
2 -0.16379231315728 333.425 373.512
3 -0.00808164793830504 957.901 963.282
4 -0.449331478059136 56.7977 77.552
5 -0.0300563966226581 977.055 997.624
6 -0.205848697566583 207.838 239.713
7 -0.105557207000354 792.901 853.09
8 -0.0706267691214439 1773.47 1862.45
9 0.00183191752822287 599.693 598.932
10 0.0307830600457279 71.6114 70.0996
11 -0.453061185426108 4957.8 6786.94
12 -0.336812077865401 56.6084 71.4943
13 -0.380467003873293 341.884 445.052
14 -0.23670948090197 219.201 258.285
15 -0.06721153872286 4594.28 4813.38
16 -0.0010903217388196 86.768 86.8336
17 -0.0615273006796772 58.5656 61.1173
18 -0.46319194446703 30360.4 41854.5
19 0.044234689957784 18747.6 18181.5
20 -0.107998351580645 1279.14 1378.57

Total number of rows: 15552

Table truncated, full table size 608 Kbytes.




Supplementary file Size Download File type/resource
GSM630382.txt.gz 650.8 Kb (ftp)(http) TXT
Processed data included within Sample table
Processed data are available on Series record

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