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Sample GSM28838 Query DataSets for GSM28838
Status Public on Jun 13, 2005
Title ski2D_3
Sample type RNA
 
Channel 1
Source name ski2D @ 26 deg
Organism Saccharomyces cerevisiae
Extracted molecule total RNA
 
Channel 2
Source name BY4741 (wt) @ 26 deg
Organism Saccharomyces cerevisiae
Extracted molecule total RNA
 
 
Description Reference and mutant strains grown at 26oC to an OD of 0.5-0.6 . RNA extracted.
 
Submission date Aug 12, 2004
Last update date Jun 13, 2005
Contact name Todd A Burckin
E-mail(s) burckin@biology.ucsc.edu
Phone 831 459-5245
Fax 831 459-3139
Organization name University of California Santa Cruz
Department Molecular, Cell, & Developmental Biology
Lab Hartzog Lab
Street address 1156 High Street
City Santa Cruz
State/province CA
ZIP/Postal code 95062
Country USA
 
Platform ID GPL1407
Series (1)
GSE1684 Exploring functional relationships between components of the gene expression machinery

Data table header descriptions
ID_REF
X X-coordinate of spot
Y Y-coordinate of spot
Dia. spot diameter in microns
F635 Median Channel 2 (Cy5/635) median pixel intensity - feature
F635 Mean Channel 2 (Cy5/635) mean pixel intensity - feature
F635 SD Channel 2 (Cy5/635) standard deviation of pixel intensities - feature
B635 Median Channel 2 (Cy5/635) median background intensity
B635 Mean Channel 2 (Cy5/635) mean background intensity
B635 SD Channel 2 (Cy5/635) standard deviation of background
% > B635+1SD Channel 2 (Cy5/635) percent of pixels 1 StDev above background
% > B635+2SD Channel 2 (Cy5/635) percent of pixels 2 StDevs above background
F635 % Sat. Channel 2 (Cy5/635) percent of pixels saturated
F532 Median Channel 1 (Cy3/532) median pixel intensity - feature
F532 Mean Channel 1 (Cy3/532) mean pixel intensity - feature
F532 SD Channel 1 (Cy3/532) standard deviation of pixel intensities - feature
B532 Median Channel 1 (Cy3/532) median background intensity
B532 Mean Channel 1 (Cy3/532) mean background intensity
B532 SD Channel 1 (Cy3/532) standard deviation of background
% > B532+1SD Channel 1 (Cy3/532) percent of pixels 1 StDev above background
% > B532+2SD Channel 1 (Cy3/532) percent of pixels 2 StDevs above background
F532 % Sat. Channel 1 (Cy3/532) percent of pixels saturated
Ratio of Medians Ratio of medians (Ch2/Ch1)
Ratio of Means Ratio of means (Ch2/Ch1)
Median of Ratios Median of ratios
Mean of Ratios Mean of ratios
Ratios SD Ratio standard deviation
Rgn Ratio Regression ratio
Rgn Rē
F Pixels Number of feature pixels
B Pixels Number of background pixels
Sum of Medians Sum of medians
Sum of Means Sum of means
VALUE Log ratio (base 2)
F635 Median - B635 Channel 2 (Cy5/635) background subtracted median feature intensity
F532 Median - B532 Channel 1 (Cy3/532) background subtracted median feature intensity
F635 Mean - B635 Channel 2 (Cy5/635) background subtracted mean feature intensity
F532 Mean - B532 Channel 1 (Cy3/532) background subtracted mean feature intensity
Flags User defined flag (default=0)

Data table
ID_REF X Y Dia. F635 Median F635 Mean F635 SD B635 Median B635 Mean B635 SD % > B635+1SD % > B635+2SD F635 % Sat. F532 Median F532 Mean F532 SD B532 Median B532 Mean B532 SD % > B532+1SD % > B532+2SD F532 % Sat. Ratio of Medians Ratio of Means Median of Ratios Mean of Ratios Ratios SD Rgn Ratio Rgn Rē F Pixels B Pixels Sum of Medians Sum of Means VALUE F635 Median - B635 F532 Median - B532 F635 Mean - B635 F532 Mean - B532 Flags
1 2400 24890 140 128 130 21 123 123 17 31 10 0 403 1335 2289 85 85 11 99 99 0 0.016 0.006 0.052 0.05 2.269 0.002 0.025 156 773 323 1257 -5.991 5 318 7 1250 0
2 2570 24890 100 129 133 21 120 120 17 38 15 0 109 123 52 82 83 11 71 58 0 0.333 0.317 0.613 0.606 3.224 0.262 0.1 80 349 36 54 -1.585 9 27 13 41 -50
3 2740 24890 100 130 130 19 114 116 17 47 15 0 111 114 17 81 82 12 92 65 0 0.533 0.485 0.652 0.7 2.768 1.196 0.072 80 400 46 49 -0.907 16 30 16 33 -50
4 2920 24880 100 128 129 22 112 113 17 48 25 0 96 105 29 78 79 12 63 38 0 0.889 0.63 1.021 0.91 3.529 0.746 0.092 80 440 34 44 -0.17 16 18 17 27 -50
5 3110 24880 120 157 156 28 106 106 17 90 69 0 129 131 24 76 76 11 97 95 0 0.962 0.909 1.007 0.862 2.01 1.072 0.514 120 459 104 105 -0.055 51 53 50 55 0
6 3280 24870 140 9968 9703 2159 103 105 22 100 100 0 9327 8953 1690 75 77 16 100 100 0 1.066 1.081 1.133 1.089 1.218 1.096 0.971 156 534 19117 18478 0.093 9865 9252 9600 8878 0
7 3450 24860 130 2188 2109 535 105 116 95 100 100 0 2241 2261 714 75 83 74 100 100 0 0.962 0.917 0.962 0.933 1.172 0.917 0.958 120 517 4249 4190 -0.056 2083 2166 2004 2186 0
8 3620 24870 100 147 155 42 107 121 107 13 0 0 101 132 67 75 85 84 26 8 0 1.538 0.842 0.871 1.011 2.393 1.068 0.842 80 393 66 105 0.621 40 26 48 57 -50
9 3810 24850 130 6391 6572 1004 108 118 103 100 100 0 6598 7411 2003 75 86 121 100 100 0 0.963 0.881 0.944 0.9 1.162 0.862 0.962 120 560 12806 13800 -0.054 6283 6523 6464 7336 0
10 3990 24850 140 9400 9304 2455 107 119 97 100 100 0 7069 7158 1899 74 86 113 99 99 0 1.329 1.298 1.385 1.301 1.262 1.305 0.957 156 658 16288 16281 0.41 9293 6995 9197 7084 0
11 4140 24860 100 139 163 82 101 103 18 66 51 0 98 143 110 73 73 11 62 53 0 1.52 0.886 1 1.264 2.403 0.778 0.822 80 336 63 132 0.604 38 25 62 70 -50
12 4320 24850 100 104 110 22 100 101 18 22 12 0 86 90 24 72 75 26 27 7 0 0.286 0.556 0.875 0.909 4.306 1.237 0.13 80 399 18 28 -1.807 4 14 10 18 -50
13 4490 24850 100 110 121 43 97 103 32 23 11 0 80 88 27 69 72 15 38 23 0 1.182 1.263 1.446 1.184 3.837 2.489 0.469 80 408 24 43 0.241 13 11 24 19 -50
14 4670 24840 100 103 108 21 98 99 17 32 16 0 81 85 22 69 70 23 31 11 0 0.417 0.625 0.88 0.775 4.359 1.44 0.065 80 415 17 26 -1.263 5 12 10 16 -50
15 4860 24840 130 1809 1802 463 99 101 19 100 100 0 1663 1630 464 69 71 21 100 100 0 1.073 1.091 1.143 1.102 1.166 1.038 0.944 120 558 3304 3264 0.101 1710 1594 1703 1561 0
16 5040 24840 130 137 138 24 97 98 18 81 60 0 111 111 19 68 68 11 96 86 0 0.93 0.953 0.951 0.936 1.984 1.239 0.428 120 482 83 84 -0.104 40 43 41 43 -50
17 5190 24830 100 100 102 18 96 96 16 22 6 0 78 79 14 68 69 10 50 25 0 0.4 0.545 1 1.187 2.53 3.063 0.047 80 363 14 17 -1.322 4 10 6 11 -50
18 5370 24830 100 96 99 18 97 97 16 21 7 0 75 74 10 67 68 10 35 12 0 -0.125 0.286 1.333 1.572 3.505 9.509 0.009 80 440 7 9 -1 8 2 7 -50
19 5560 24820 130 237 232 46 96 96 15 100 100 0 187 184 25 66 67 9 100 100 0 1.165 1.153 1.142 1.105 1.473 1.228 0.803 120 586 262 254 0.221 141 121 136 118 0
20 5720 24820 100 111 113 23 98 98 16 45 22 0 86 87 14 67 69 12 68 28 0 0.684 0.75 1.235 1.18 2.935 1.924 0.118 80 362 32 35 -0.547 13 19 15 20 -50

Total number of rows: 5760

Table truncated, full table size 934 Kbytes.




Supplementary data files not provided

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