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Sample GSM630231 Query DataSets for GSM630231
Status Public on Dec 09, 2010
Title pph22-del-3-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 pph22-del
Organism Saccharomyces cerevisiae
Characteristics strain (or line): BY4742
genotype/variation: pph22-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
GSE42526 Compendium of deletion mutant gene expression profiles, 784 non-responsive mutants [hs1990]
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 -0.416330996396644 10920.4 8182.96
2 -0.00998865782173406 306.97 304.852
3 0.154659693116992 654.654 728.734
4 -0.0187711623337882 49.8186 49.1746
5 -0.0719575882130172 647.617 616.108
6 -0.199722528500826 165.081 143.739
7 -0.0212225462498836 634.815 625.545
8 0.0442123922521382 1205.33 1242.84
9 -0.211521634550334 450.496 389.06
10 -0.0141569874857943 57.9423 57.3765
11 0.154598945768553 5151.79 5734.52
12 -0.0660601939870521 49.8314 47.6011
13 -0.409994300150931 242.447 182.472
14 -0.064528048164417 193.933 185.45
15 -0.0193647215104244 3554.36 3506.97
16 -0.00699946495040879 72.4807 72.1299
17 -0.0923646750792339 50.8192 47.6676
18 -0.421907632464914 15162.7 11318
19 0.0676220903516752 15168.4 15896.3
20 -0.0990722822564466 1131.74 1056.63

Total number of rows: 15552

Table truncated, full table size 609 Kbytes.




Supplementary file Size Download File type/resource
GSM630231.txt.gz 687.5 Kb (ftp)(http) TXT
Processed data included within Sample table
Processed data are available on Series record

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