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Sample GSM636364 Query DataSets for GSM636364
Status Public on May 23, 2011
Title caf40-del-2-b
Sample type RNA
 
Channel 1
Source name caf40-del
Organism Saccharomyces cerevisiae
Characteristics strain: BY4742
genotype: caf40-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: BY4742
genotype: wild type
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
Imagene feature extraction
Data processing 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 Dec 07, 2010
Last update date May 23, 2011
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)
GSE25909 Gene deletion expression profiles of yeast chromatin modifiers
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 dye bias corrected normalized log2 ratio (Cy5/Cy3)
Signal Norm_Cy5
Signal Norm_Cy3

Data table
ID_REF VALUE Signal Norm_Cy5 Signal Norm_Cy3
1 0.646914339729088 15224.3 9722.92
2 0.0675769500611202 288.501 275.299
3 0.0772708322254147 666.066 631.33
4 0.0383384578700421 58.0151 56.4937
5 -0.211608866619858 503.884 583.487
6 0.0555589665627644 174.994 168.383
7 0.0452018194989235 660.512 640.138
8 0.0784390006319096 1180.88 1118.39
9 -0.110811844215034 373.993 403.851
10 -0.0642162702168805 70.5102 73.7196
11 0.396054576431151 6616.38 5028.01
12 0.12926130120797 56.0545 51.2506
13 0.224051387426447 225.365 192.948
14 -0.118802940849854 172.753 187.581
15 0.0296985676092305 3019.38 2957.86
16 -0.0425258043617816 75.0985 77.3451
17 0.158992074712796 57.1043 51.1455
18 0.608421215322554 18318.1 12015.1
19 0.236155785846579 13124.9 11143.1
20 0.112648982471277 1121.13 1036.92

Total number of rows: 15552

Table truncated, full table size 606 Kbytes.




Supplementary file Size Download File type/resource
GSM636364_5191_raw.txt.gz 690.2 Kb (ftp)(http) TXT
Processed data included within Sample table
Processed data are available on Series record

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