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Sample GSM630233 Query DataSets for GSM630233
Status Public on Dec 09, 2010
Title pph3-del-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 pph3-del
Organism Saccharomyces cerevisiae
Characteristics strain (or line): BY4742
genotype/variation: pph3-del
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
GSE42527 Compendium of deletion mutant gene expression profiles, 700 responsive mutants [hs1991]
GSE42528 Compendium of deletion mutant gene expression profiles

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 -0.252676013564893 24233.5 20340.1
2 -0.196657888868859 303.499 264.824
3 0.185518085438268 689.268 783.853
4 0.109837231007646 52.131 56.2549
5 0.0257966987462364 790.279 804.537
6 -0.127616206019989 199.203 182.339
7 -0.151940311715691 699.584 629.653
8 -0.0431862550492583 1733.42 1682.3
9 -0.110256536420633 574.856 532.56
10 0.0692380658866358 69.7443 73.1731
11 -0.527094602325248 5637.82 3912.37
12 0.040163649924006 55.2453 56.8049
13 -0.230648077084644 349.162 297.574
14 -0.217790294703422 221.541 190.499
15 -0.111817342174908 4352.6 4027.99
16 0.208593873222039 82.2595 95.0559
17 0.0502153061301723 58.5046 60.5768
18 -0.210489381454538 27752 23984.5
19 -0.0162736017460412 12668.7 12526.6
20 0.00152415266764385 1192.03 1193.29

Total number of rows: 15552

Table truncated, full table size 608 Kbytes.




Supplementary file Size Download File type/resource
GSM630233.txt.gz 698.1 Kb (ftp)(http) TXT
Processed data included within Sample table
Processed data are available on Series record

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