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Sample GSM630552 Query DataSets for GSM630552
Status Public on Dec 09, 2010
Title yvh1-del-1-b
Sample type RNA
 
Channel 1
Source name yvh1-del
Organism Saccharomyces cerevisiae
Characteristics strain (or line): BY4742
genotype/variation: yvh1-del
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 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 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 -0.968194586215923 7670.4 15006.3
2 0.5983520027137 202.155 133.525
3 -0.159700161796704 409.705 457.663
4 -0.00590802042328228 53.7343 53.9548
5 -0.00375403059174077 460.567 461.767
6 -0.650297491300548 111.157 174.46
7 -0.459687817796135 324.53 446.308
8 -0.130297060001799 945.164 1034.5
9 -0.139807349903112 308.251 339.618
10 -0.101055907826674 61.8166 66.3019
11 -0.0561083753778482 3376.66 3510.57
12 -0.0193037716053955 53.6589 54.3817
13 -0.811605646152618 125.974 221.105
14 0.0818087217794405 175.03 165.381
15 0.131636987930224 3116.34 2844.58
16 -0.0222198904942632 66.5942 67.6278
17 -0.0922550932802895 53.0944 56.6005
18 -0.993715341105197 9151.73 18223.9
19 -0.212733026736672 7635.44 8848.57
20 -0.326279272323185 796.144 998.186

Total number of rows: 15552

Table truncated, full table size 605 Kbytes.




Supplementary file Size Download File type/resource
GSM630552.txt.gz 677.2 Kb (ftp)(http) TXT
Processed data included within Sample table
Processed data are available on Series record

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