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Sample GSM630467 Query DataSets for GSM630467
Status Public on Dec 09, 2010
Title wt-sv064-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 0.371295213716777 11013.8 14246.5
2 -0.166209066508746 118.941 105.998
3 -0.0431783654634744 417.086 404.788
4 0.100685394865744 53.1247 56.9647
5 -0.148892034095319 409.445 369.296
6 0.11803267082731 140.58 152.565
7 0.0396152498461626 332.978 342.248
8 0.0377745043758246 757.659 777.759
9 -0.235051368444021 294.276 250.033
10 0.0829105612832315 61.2466 64.8695
11 -0.0030702617200021 2690.65 2684.93
12 -0.0493640469408307 53.9661 52.1508
13 0.0159165602914554 175.777 177.727
14 0.0249348355253236 125.217 127.4
15 0.0118689527287181 2044.58 2061.47
16 0.00162158463427136 63.3987 63.47
17 -0.0406945562563803 55.9051 54.3502
18 0.345213156725005 11539.6 14659.2
19 0.0661374828207739 7330.2 7674.06
20 -0.0355774644647578 810.712 790.964

Total number of rows: 15552

Table truncated, full table size 611 Kbytes.




Supplementary file Size Download File type/resource
GSM630467.txt.gz 680.2 Kb (ftp)(http) TXT
Processed data included within Sample table
Processed data are available on Series record

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