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Sample GSM630475 Query DataSets for GSM630475
Status Public on Dec 09, 2010
Title wt-sv073-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 -0.725467404165775 6881.8 4162.12
2 0.11133559719721 281.461 304.042
3 -0.0168203634062013 610.89 603.809
4 -0.172532301532302 50.44 44.7546
5 -0.144145393577077 567.925 513.924
6 -0.386022599164788 145.031 110.983
7 -0.00744589393558176 571.7 568.757
8 -0.00130336317898662 1184.92 1183.85
9 -0.141299975129051 394.134 357.362
10 0.0200302568432558 59.1957 60.0233
11 0.126972614782341 4595.77 5018.58
12 -0.115420105051687 53.6778 49.5507
13 -0.497065315526251 164.685 116.687
14 -0.0246588481245972 193.958 190.671
15 -0.0159966719458964 3000.87 2967.78
16 -0.0685413187461997 79.1839 75.5099
17 -0.143353531235254 52.3957 47.4397
18 -0.72069851659694 8809.49 5345.63
19 -0.0195409018698517 11915.2 11754.9
20 -0.0710562886944959 1103.43 1050.4

Total number of rows: 15552

Table truncated, full table size 612 Kbytes.




Supplementary file Size Download File type/resource
GSM630475.txt.gz 682.3 Kb (ftp)(http) TXT
Processed data included within Sample table
Processed data are available on Series record

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