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Sample GSM1153191 Query DataSets for GSM1153191
Status Public on Jul 12, 2013
Title ACY959 Sb Ime1 mutant 60 minute alpha factor
Sample type RNA
 
Channel 1
Source name Universal reference
Organism Saccharomyces bayanus
Characteristics species: S. bayanus
strain name: mixed
Biomaterial provider Amy Caudy, Caudy Lab, The Donnelly Centre, University of Toronto
Treatment protocol Growth Condition : mixed
Extracted molecule total RNA
Extraction protocol Extracted molecule : RNA
Extraction method : acid phenol extraction
Label Cy3
Label protocol reference URL : http://genomics.princeton.edu/caudylab/Yeast_RNA_Prep_and_Labeling_070925.pdf
 
Channel 2
Source name ACY959 Sb Ime1 mutant 60 minute alpha factor
Organism Saccharomyces bayanus
Characteristics strain name: ACY959
genotype: ime1
sex/mating type: MATa
species: S. bayanus
Biomaterial provider Amy Caudy, Caudy Lab, The Donnelly Centre, University of Toronto
Treatment protocol Time : 60 minutes
Compound Based Treatment : 50 ng/ml alpha factor
Growth Condition : 25C YPD
Extracted molecule total RNA
Extraction protocol Extracted molecule : RNA
Extraction method : acid phenol extraction
Label Cy5
Label protocol reference URL : http://genomics.princeton.edu/caudylab/Yeast_RNA_Prep_and_Labeling_070925.pdf
 
 
Hybridization protocol reference URL : http://genomics.princeton.edu/caudylab/Yeast_RNA_Prep_and_Labeling_070925.pdf
Scan protocol Pixel Size : 5
Scan Date : 2009-07-07
Scan Time : 14:15:42
Scanner Make : Agilent Technologies Scanner
Scanner Model : G2505B
Scanning software : ChipScan
Scanning software version : A.7.0.1
Description Saccharomyces bayanus var uvarum
ACY959 Sb Ime1 mutant 60 minute alpha factor
Data processing Extraction Software : GenePix Pro
Extraction Software Version : 6.1.0.4
Datafile type : GenePix Results 3
Image Origin : 0, 0
 
Submission date Jun 03, 2013
Last update date Jul 12, 2013
Contact name Maitreya J. Dunham
E-mail(s) maitreya@uw.edu
Phone 206-543-2338
Organization name University of Washington
Department Genome Sciences
Lab Dunham Lab
Street address Foege Building, S403B, Box 355065
City Seattle
State/province WA
ZIP/Postal code 98195-5065
Country USA
 
Platform ID GPL17234
Series (1)
GSE47613 A New System for Comparative Functional Genomics of Saccharomyces Yeasts

Data table header descriptions
ID_REF
VALUE Log (base 2) of the ratio of the mean of Channel 2 (usually 635 nm) to Channel 1 (usually 532 nm) [log (base 2) (RAT2N_MEAN)].
RAT2N_MEAN Channel 2/Channel 1 ratio normalized, RAT2_MEAN/Normalization factor or Red/Green mean ratio normalized.
CH1D_MEAN Mean Channel 1 (usually 532 nm) intensity with the median-background subtracted (CH1I_MEAN - CH1B_MEDIAN)
CH2DN_MEAN Normalized value of mean Channel 2 (usually 635 nm) intensity with normalized background subtracted (CH2IN_MEAN - CH2BN_MEDIAN).
CH1I_MEAN Mean spot pixel intensity at Channel 1 (usually 532 nm).
CH1B_MEDIAN Median spot background intensity in Channel 1 (usually 532 nm).
CH2IN_MEAN Normalized value of mean Channel 2 (usually 635 nm) intensity (CH2I_MEAN/Normalization factor).
CH2BN_MEDIAN Normalized value of median Channel 2 (usually 635 nm) background (CH2B_MEDIAN/Normalization factor).
CORR Sqrt(Coefficient of determination for the current regression value) with sign inferred from sign of REGR column. Value of '-1' indicates an error in this field.
FLAG Type of flag associated with a spot.

Data table
ID_REF VALUE RAT2N_MEAN CH1D_MEAN CH2DN_MEAN CH1I_MEAN CH1B_MEDIAN CH2IN_MEAN CH2BN_MEDIAN CORR FLAG
1 .892 1.856 704 1307 756 52 1491 184 .91 0
2 .85 1.803 917 1653 971 54 1838 184 .85 0
3 .837 1.786 1167 2084 1218 51 2264 180 .86 0
4 .958 1.942 1008 1958 1055 47 2138 180 .85 0
5 .866 1.822 1095 1996 1141 46 2171 176 .87 0
6 .843 1.794 1157 2076 1203 46 2251 176 .85 0
7 .882 1.843 1803 3322 1848 45 3498 176 .85 0
8 .933 1.909 1326 2531 1371 45 2711 180 .86 0
9 .198 1.147 31 36 85 54 209 173 .18 0
10 -3.065 .12 595 71 638 43 247 176 .37 0
11 -2.731 .151 59 9 105 46 189 180 .14 0
12 -1.128 .458 34 16 79 45 187 171 .12 0
13 -.655 .635 56 36 106 50 209 173 .2 0
14 3.411 10.64 66 702 108 42 878 176 .54 0
15 -.82 .566 51 29 95 44 200 171 .22 0
16 -.674 .627 39 24 82 43 193 169 .21 0
17 -1.118 .461 82 38 131 49 216 178 .29 0
18 -.037 .975 57 56 113 56 224 169 .28 0
19 -1.503 .353 63 22 115 52 198 176 .26 0
20 .118 1.086 12127 13164 12177 50 13342 178 .92 0

Total number of rows: 12672

Table truncated, full table size 567 Kbytes.




Supplementary file Size Download File type/resource
GSM1153191_4854_supplement.gpr.gz 1.3 Mb (ftp)(http) GPR
Processed data included within Sample table

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