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Sample GSM30551 Query DataSets for GSM30551
Status Public on Nov 05, 2004
Title 5 microgram/ml benomyl
Sample type RNA
 
Channel 1
Source name no benomyl
Organism Saccharomyces cerevisiae
Extracted molecule total RNA
 
Channel 2
Source name 5 microgram/ml benomyl
Organism Saccharomyces cerevisiae
Extracted molecule total RNA
 
 
Description A pool of 5,896 haploid-convertible heterozygous diploid yeast knockout (YKO) strains were sporulated
A pool of isogenic haploid MATa cells were obtained by selection on a magic medium with (sample2) or without (sample1) 5 microgram/ml of benomyl at 30 degree for 2 days.
Genomic DNA samples were prepared from these two pools of freshly generated haploid cells and used as the templates for PCR amplification of the TAGs identifying the YKOs with a pair of primers universal for either Uptags or Downtags.
The PCR products from sample1 were labeled with Cy5 and those from sample2 with Cy3.
The Cy5- and Cy3-labeled Uptags and Downtags were mixed together and hybridized to a Hopkins-TagArray.
Fluorescent array images were collected for both Cy5 and Cy3 with a GenePix4000B microarray scanner.
The image data was annalyzed with a GenePix5.1 program.
Keywords = 5 microgram/ml, benomyl, heterozygotes, YKO
 
Submission date Sep 13, 2004
Last update date May 27, 2005
Contact name Xuewen Pan
E-mail(s) xpan2@jhmi.edu
Phone 410-955-2477
Organization name Johns Hopkins University School of Medicine
Department Department of Molecular Biology and Genetics
Lab Boeke Lab
Street address 733 N. Broadway, Room 331
City Baltimore
State/province MD
ZIP/Postal code 21205
Country USA
 
Platform ID GPL1444
Series (2)
GSE1752 Benomyl dose-response
GSE1838 dSLAM

Data table header descriptions
ID_REF Serial identifier for probe
F635_Median Cy5 (F635) median fluorescence intensity
B635_Median Cy5 (F635) background median fluorescence intensity
F532_Median Cy3 (F532) median fluorescence intensity
B532_Median Cy3 (F532) background median fluorescence intensity
F635-B635_Median Background substracted Cy5 (F635) median fluorescence intensity
F532-B532_Median Background substracted Cy3 (F532) median fluorescence intensity
VALUE log ratio (log2 of PRE_VALUE)
Flags
PRE_VALUE Normalized ratio defined by F635-B635_Median/F532-B532_Median

Data table
ID_REF F635_Median B635_Median F532_Median B532_Median F635-B635_Median F532-B532_Median VALUE Flags PRE_VALUE
1 440 43 212 51 397 161 1.3561443 -50 2.56
2 1249 46 1901 52 1203 1849 -0.5563933 0 0.68
3 131 46 141 55 85 86 0.0426443 -50 1.03
4 13972 51 12893 59 13921 12834 0.1763233 0 1.13
5 79 45 131 58 34 73 -1.0588943 -50 0.48
6 1042 46 1422 54 996 1368 -0.3959293 0 0.76
7 4291 45 5629 54 4246 5575 -0.3400753 0 0.79
8 5134 49 10390 60 5085 10330 -0.9714313 0 0.51
9 1306 43 594 56 1263 538 1.2868813 0 2.44
10 2004 46 1501 61 1958 1440 0.4956953 0 1.41
11 299 44 451 56 255 395 -0.5777673 -50 0.67
12 1111 44 2045 59 1067 1986 -0.8365013 0 0.56
13 17606 50 17077 61 17556 17016 0.0976113 0 1.07
14 16638 52 15057 59 16586 14998 0.2016343 0 1.15
15 131 45 252 58 86 194 -1.1202943 -50 0.46
16 108 52 131 55 56 76 -0.3770703 -50 0.77
17 7144 44 8577 58 7100 8519 -0.2009133 0 0.87
18 1870 46 1989 58 1824 1931 -0.0291463 0 0.98
19 7211 45 2290 56 7166 2234 1.7398483 0 3.34
20 3714 46 4291 57 3668 4234 -0.1520033 0 0.9

Total number of rows: 22575

Table truncated, full table size 1015 Kbytes.




Supplementary file Size Download File type/resource
GSM30551_cy3.tif.gz 13.8 Mb (ftp)(http) TIFF
GSM30551_cy5.tif.gz 13.9 Mb (ftp)(http) TIFF

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