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Sample GSM630496 Query DataSets for GSM630496
Status Public on Dec 09, 2010
Title wt-tm001-1-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 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 (3)
GSE25644 Expression profiling of yeast kinase and phosphatase knockouts
GSE42215 yeast wt pool
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 0.76889430000442 12357.5 7252.21
2 -0.105404295680765 162.41 174.72
3 -0.052723214368225 342.603 355.355
4 -0.0749898630458304 44.6605 47.0433
5 -0.0566390609310091 272.777 283.699
6 0.378816334683617 130.216 100.145
7 0.0128101866299116 296.605 293.983
8 -0.125463107004788 732.628 799.193
9 -0.0676298454239408 235.865 247.185
10 0.0291127098749638 62.0609 60.8211
11 -0.105918521804274 2737.75 2946.31
12 -0.0755266962792251 45.7916 48.2527
13 0.315546707279703 167.154 134.316
14 -0.12074011434267 107.535 116.922
15 -0.0529257529795705 1421.86 1474.99
16 0.0218955513719373 66.504 65.5023
17 -0.0596038355659348 46.9659 48.9469
18 0.707065945089618 13763.2 8430.85
19 -0.0145431726398507 5383.19 5437.73
20 0.0940817895077593 555.474 520.406

Total number of rows: 15552

Table truncated, full table size 607 Kbytes.




Supplementary file Size Download File type/resource
GSM630496.txt.gz 676.2 Kb (ftp)(http) TXT
Processed data included within Sample table
Processed data are available on Series record

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