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Sample GSM630495 Query DataSets for GSM630495
Status Public on Dec 09, 2010
Title wt-tm001-1-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 (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 1.00031051083564 7247.29 14497.7
2 0.0201083696562361 175.553 178.017
3 0.0964327687288367 378.566 404.735
4 0.00120088129898418 44.9123 44.9497
5 -0.0839489407608299 322.493 304.263
6 0.269557989190098 102.235 123.238
7 -0.141757900884927 354.925 321.709
8 0.130524526951584 780.428 854.328
9 -0.079850641659898 277.169 262.245
10 -0.0760979452019231 60.7823 57.6593
11 -0.0779491634847449 3245.08 3074.4
12 0.00399055544126534 47.078 47.2084
13 0.367033584243914 133.929 172.728
14 0.0617386370243285 114.311 119.309
15 0.0503403246713561 1668.02 1727.25
16 -0.0166818713752531 64.8464 64.1009
17 0.0235422357523144 46.0549 46.8126
18 1.05879622301495 7904.55 16466.7
19 0.174673499448343 5935.33 6699.26
20 -0.0354443322646813 616.759 601.791

Total number of rows: 15552

Table truncated, full table size 608 Kbytes.




Supplementary file Size Download File type/resource
GSM630495.txt.gz 680.9 Kb (ftp)(http) TXT
Processed data included within Sample table
Processed data are available on Series record

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