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Sample GSM630381 Query DataSets for GSM630381
Status Public on Dec 09, 2010
Title wt-ic008-a
Sample type RNA
 
Channel 1
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 Cy5
Label protocol robot amplification and labeling v1.0
 
Channel 2
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 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 -0.0717249455873611 37218.3 35413.2
2 -0.0703840886909864 165.219 157.352
3 0.0759390460940735 497.901 524.811
4 -0.147839627868233 59.7142 53.8981
5 -0.0206807275866823 360.231 355.104
6 -0.10190727091425 183.212 170.717
7 -0.0978183851410591 405.827 379.223
8 -0.115109471091196 516.145 476.563
9 0.0434475814406727 271.116 279.405
10 0.00577296695551239 70.8312 71.1152
11 -0.203634418811487 2064.27 1792.53
12 -0.148199146473818 61.7636 55.734
13 -0.221596869152896 346.878 297.488
14 -0.188710611905517 122.2 107.217
15 -0.0983770196530278 1647.38 1538.79
16 -0.0733502936938643 69.7051 66.2497
17 -0.130879646839434 61.3141 55.9966
18 -0.108440439437767 33349.1 30934.3
19 0.203330724932582 8422.87 9697.7
20 -0.0600807544707227 381.421 365.863

Total number of rows: 15552

Table truncated, full table size 611 Kbytes.




Supplementary file Size Download File type/resource
GSM630381.txt.gz 646.8 Kb (ftp)(http) TXT
Processed data included within Sample table
Processed data are available on Series record

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