NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM630106 Query DataSets for GSM630106
Status Public on Dec 09, 2010
Title bck1-del-1-b
Sample type RNA
 
Channel 1
Source name bck1-del
Organism Saccharomyces cerevisiae
Characteristics strain (or line): BY4742
genotype/variation: bck1-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 0.21646985940094 35913 30909.2
2 -0.0163924352218308 341.817 345.723
3 0.111763680159709 932.711 863.183
4 0.145038557954698 51.4832 46.5591
5 0.109423535063586 918.49 851.402
6 0.328737641399026 270.127 215.084
7 0.0872177023429441 866.892 816.037
8 0.0153860998656535 1606.31 1589.27
9 -0.149549138636406 462.605 513.132
10 -0.109450825565451 68.6104 74.0181
11 -0.544278149362841 3969.6 5788.83
12 -0.174936925924935 52.924 59.7467
13 0.0225282891722315 363.557 357.924
14 -0.214420677640625 189.643 220.031
15 -0.175960447989088 3959.72 4473.36
16 -0.0538058434644331 75.4877 78.3562
17 -0.158617429478548 51.7188 57.7294
18 0.104454511083434 31186.9 29008.7
19 0.0904064236566894 21439.9 20137.6
20 -0.0946640253558587 1366.33 1458.99

Total number of rows: 15552

Table truncated, full table size 605 Kbytes.




Supplementary file Size Download File type/resource
GSM630106.txt.gz 657.5 Kb (ftp)(http) TXT
Processed data included within Sample table
Processed data are available on Series record

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap