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Sample GSM636342 Query DataSets for GSM636342
Status Public on May 23, 2011
Title asf1-del-1-d
Sample type RNA
 
Channel 1
Source name asf1-del
Organism Saccharomyces cerevisiae
Characteristics strain: BY4742
genotype: asf1-del
Extracted molecule total RNA
Extraction protocol yeast HTP RNA isolation for robot v2.0
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 0.680690136695738 1205.4 752.009
2 -0.10392629405458 117.586 126.369
3 -0.0635995286210712 251.631 262.972
4 -0.150855841488015 50.3838 55.9375
5 -0.18348721511142 189.249 214.916
6 0.28293050142304 93.0721 76.4978
7 0.1733980043287 188.612 167.252
8 -0.0212442103341858 535.178 543.117
9 -0.00107803383087758 176.585 176.717
10 0.0908579235078789 55.8705 52.4604
11 0.717676423066396 2837.54 1725.44
12 -0.0816240817594247 51.5336 54.5333
13 0.069126717416731 68.3507 65.1529
14 -0.0818783718818865 83.1062 87.9592
15 -0.0145669771449753 853.944 862.61
16 0.0863407785754134 63.2264 59.5535
17 -0.0403988540602382 59.673 61.3676
18 0.69852707675172 1633.85 1006.78
19 0.46253426605615 4302.86 3122.63
20 0.0101950094808969 405.156 402.303

Total number of rows: 15552

Table truncated, full table size 605 Kbytes.




Supplementary file Size Download File type/resource
GSM636342_8312_raw.txt.gz 670.4 Kb (ftp)(http) TXT
Processed data included within Sample table
Processed data are available on Series record

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