NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM30553 Query DataSets for GSM30553
Status Public on Nov 05, 2004
Title 15 microgram/ml benomyl
Sample type RNA
 
Channel 1
Source name no benomyl
Organism Saccharomyces cerevisiae
Extracted molecule total RNA
 
Channel 2
Source name 15 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) 15 microgram/ml of benomyl at 30 degree for 3 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 = 15 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
1 432 62 359 73 370 286 0.7570233 -50 1.69
2 2028 64 1647 75 1964 1572 0.7136963 0 1.64
3 108 66 219 75 42 144 -1.3959293 -50 0.38
4 16689 63 10312 75 16626 10237 1.0908533 0 2.13
5 68 67 123 77 1 46 -5.0588943 -50 0.03
6 1656 67 3195 82 1589 3113 -0.5777673 0 0.67
7 3859 58 6095 73 3801 6022 -0.2688173 0 0.83
8 6256 57 6443 72 6199 6371 0.3448283 0 1.27
9 1240 61 1462 76 1179 1386 0.1505603 0 1.11
10 1977 63 794 82 1914 712 1.8155753 0 3.52
11 346 57 451 70 289 381 -0.0145003 -50 0.99
12 890 64 1603 74 826 1529 -0.4941093 0 0.71
13 15378 48 16015 67 15330 15948 0.3334243 0 1.26
14 17262 58 21347 72 17204 21275 0.0840643 0 1.06
15 217 69 371 84 148 287 -0.5563933 -50 0.68
16 199 79 187 92 120 95 0.7224663 -50 1.65
17 7731 80 8340 97 7651 8243 0.2868813 0 1.22
18 3828 81 4252 93 3747 4159 0.2387873 0 1.18
19 5290 75 7625 88 5215 7537 -0.1360623 0 0.91
20 5614 76 6462 92 5538 6370 0.1890343 0 1.14

Total number of rows: 22575

Table truncated, full table size 1025 Kbytes.




Supplementary file Size Download File type/resource
GSM30553_cy3.tif.gz 13.6 Mb (ftp)(http) TIFF
GSM30553_cy5.tif.gz 13.6 Mb (ftp)(http) TIFF

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