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Sample GSM63143 Query DataSets for GSM63143
Status Public on Jul 06, 2006
Title E01_80
Sample type RNA
 
Channel 1
Source name WT (BY4700) on M.Gln + rapamycin (20 min)
Organism Saccharomyces cerevisiae
Characteristics WT (BY4700) on M.Gln + rapamycin (20 min)
Extracted molecule total RNA
Label Cy3
 
Channel 2
Source name gln3∆-gat1∆ (03167b) on M.Gln
Organism Saccharomyces cerevisiae
Characteristics gln3∆-gat1∆ (03167b) on M.Gln
Extracted molecule total RNA
Label Cy5
 
 
Description Scan at high laser power and high PMT gain to detect the faintest spots
Data processing VALUE = Log Ratio (635 /532), NO normalization
 
Submission date Jul 07, 2005
Last update date Jul 11, 2005
Contact name Bart Scherens
Organization name IRMW-ULB
Department Microbiology
Street address Av. E. Gryson, 1
City Brussels
ZIP/Postal code 1070
Country Belgium
 
Platform ID GPL2600
Series (1)
GSE2891 Transcriptional response to nitrogen availability in yeast

Data table header descriptions
ID_REF
Block Block that the spot was printed in
Column Column within the block
Row Row within the block
Name ORF Name / Feature Namex
X X-coordinate of spot
Y Y-coordinate of spot
Dia. spot diameter in micron
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 (635/532) Ratio of Medians (635/532)
Ratio of Means (635/532) Ratio of Means (635/532)
Median of Ratios (635/532) Median of Ratios (635/532)
Mean of Ratios (635/532) Mean of Ratios (635/532)
Ratios SD (635/532) Ratios SD (635/532)
Rgn Ratio (635/532) Rgn Ratio (635/532)
Rgn R² (635/532) Rgn R ≤ (635/532)
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 (635/532)
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
F635 Total Intensity F635 Total Intensity
F532 Total Intensity F532 Total Intensity
SNR 635
SNR 532
Flags User defined flag (default=0)
Normalize

Data table
ID_REF Block Column Row Name 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 (635/532) Ratio of Means (635/532) Median of Ratios (635/532) Mean of Ratios (635/532) Ratios SD (635/532) Rgn Ratio (635/532) Rgn R² (635/532) F Pixels B Pixels Sum of Medians Sum of Means VALUE F635 Median - B635 F532 Median - B532 F635 Mean - B635 F532 Mean - B532 F635 Total Intensity F532 Total Intensity SNR 635 SNR 532 Flags Normalize
1 1 1 1 YBR119W 2130 470 80 3246 3350 1086 988 1069 498 96 86 0 10010 10065 1936 4452 4505 995 98 94 0 0.406 0.421 0.418 0.392 2.091 0.337 0.486 52 340 7816 7975 -1.3 2258 5558 2362 5613 174206 523356 4.58 5.588 0 0
2 1 2 1 YBR119W 2330 460 80 3471 3715 1234 981 1039 555 98 96 0 10177 11642 6924 4275 4317 928 100 100 0 0.422 0.371 0.39 0.403 1.629 0.238 0.602 52 340 8392 10101 -1.245 2490 5902 2734 7367 193196 605394 4.822 7.893 0 0
3 1 3 1 YBR115C 2530 470 90 38691 37688 8315 1175 1255 644 100 100 0 23021 23476 4365 4526 4552 872 100 100 0 2.028 1.927 1.854 1.924 1.241 1.935 0.925 52 420 56011 55463 1.02 37516 18495 36513 18950 1959788 1220750 56.573 21.702 0 0
4 1 4 1 YBR115C 2740 480 100 32429 29855 8932 1044 1119 512 100 100 0 20810 19254 5468 4424 4499 948 98 98 0 1.915 1.943 1.911 2.037 1.309 1.927 0.939 80 518 47771 43641 0.938 31385 16386 28811 14830 2388365 1540332 56.125 15.564 0 0
5 1 5 1 YBR099C 2930 470 120 794 842 391 770 857 476 15 1 0 4696 4709 1001 4194 4259 985 28 10 0 0.048 0.14 0.307 0.347 4.54 27.653 0.004 120 647 526 587 -4.387 24 502 72 515 101038 565031 -0.032 0.457 -50 0
6 1 6 1 YBR099C 3210 490 80 585 623 369 538 581 323 21 7 0 6369 6825 2251 5050 5143 1274 51 23 0 0.036 0.048 0.128 0.125 3.691 0.02 0.009 52 297 1366 1860 -4.811 47 1319 85 1775 32420 354881 0.13 1.32 0 0
7 1 7 1 YBR095C 3340 480 80 2037 2093 610 680 746 386 98 84 0 12195 12345 1535 4380 4416 1015 100 100 0 0.174 0.177 0.171 0.162 1.812 0.158 0.56 52 297 9172 9378 -2.526 1357 7815 1413 7965 108846 641955 3.49 7.812 0 0
8 1 8 1 YBR095C 3540 480 90 2632 2613 863 830 881 415 98 82 0 12831 12983 1634 4269 4340 828 100 100 0 0.21 0.205 0.187 0.182 1.787 0.194 0.621 52 420 10364 10497 -2.248 1802 8562 1783 8714 135872 675114 4.173 10.438 0 0
9 1 9 1 YBR091C 3740 490 90 1902 2031 795 796 862 443 82 69 0 7245 7276 1343 4300 4325 856 98 78 0 0.376 0.415 0.386 0.378 2.611 0.262 0.242 52 420 4051 4211 -1.413 1106 2945 1235 2976 105596 378371 2.639 3.447 0 0
10 1 10 1 YBR091C 3940 490 80 2099 2145 739 784 811 371 94 75 0 6892 6881 1174 4195 4236 941 90 71 0 0.488 0.507 0.465 0.502 2.636 0.314 0.298 52 340 4012 4047 -1.036 1315 2697 1361 2686 111522 357818 3.596 2.811 0 0
11 1 11 1 YBR077C 4140 490 90 1679 1722 494 773 829 433 86 51 0 11055 11103 1751 4299 4413 1341 100 98 0 0.134 0.139 0.132 0.133 1.725 0.109 0.312 52 420 7662 7753 -2.899 906 6756 949 6804 89534 577337 2.062 4.989 0 0
12 1 12 1 YBR077C 4340 490 90 1919 1958 581 721 805 440 92 71 0 11161 11332 2112 4322 4400 1407 100 100 0 0.175 0.176 0.174 0.167 1.684 0.147 0.476 52 420 8037 8247 -2.513 1198 6839 1237 7010 101792 589286 2.62 4.927 0 0
13 1 13 1 YBR073W 4540 500 80 1120 1252 545 695 777 425 50 30 0 6877 6926 1439 3984 4137 998 90 75 0 0.147 0.189 0.227 0.263 3.845 0.105 0.106 52 340 3318 3499 -2.767 425 2893 557 2942 65128 360138 1.118 2.795 0 0
14 1 14 1 YBR073W 4740 500 80 1081 1194 501 735 766 348 50 30 0 6772 6906 1161 4259 4242 970 94 73 0 0.138 0.173 0.22 0.189 2.974 0.088 0.091 52 340 2859 3106 -2.861 346 2513 459 2647 62064 359092 1.23 2.746 0 0
15 1 15 1 YBR069C 4940 510 60 1145 1312 660 762 788 394 46 28 0 6140 6457 1357 3932 3940 846 90 68 0 0.173 0.218 0.304 0.212 2.549 0.149 0.141 32 176 2591 3075 -2.527 383 2208 550 2525 41982 206621 1.33 2.975 0 0
16 1 16 1 YBR069C 5130 500 120 946 1015 419 693 736 380 43 18 0 5037 5295 1755 4121 4225 1028 44 18 0 0.276 0.274 0.38 0.315 3.985 0.072 0.04 120 670 1169 1496 -1.856 253 916 322 1174 121842 635378 0.734 1.041 -50 0
17 1 17 1 YBR053C 5340 500 80 1481 1557 658 713 764 379 73 50 0 9646 9573 1564 4235 4287 960 100 100 0 0.142 0.158 0.167 0.137 2.42 0.125 0.294 52 340 6179 6182 -2.817 768 5411 844 5338 80952 497821 2.092 5.506 0 0
18 1 18 1 YBR053C 5550 510 90 1203 1251 466 724 768 399 57 23 0 11613 11707 2033 4095 4203 873 100 98 0 0.064 0.069 0.069 0.068 2.038 0.069 0.236 52 420 7997 8139 -3.972 479 7518 527 7612 65052 608767 1.211 8.596 0 0
19 1 19 1 YBR049C 5740 510 90 2100 2117 573 705 796 938 75 25 0 11450 11233 1583 4005 4241 1972 100 100 0 0.187 0.195 0.189 0.181 1.725 0.19 0.586 52 420 8840 8640 -2.416 1395 7445 1412 7228 110090 584113 1.408 3.546 0 0
20 1 20 1 YBR049C 5940 520 90 2583 2640 825 737 795 478 96 86 0 12180 11913 2253 4046 4100 984 100 100 0 0.227 0.242 0.235 0.227 1.755 0.221 0.585 52 414 9980 9770 -2.14 1846 8134 1903 7867 137276 619485 3.86 7.94 0 0

Total number of rows: 15488

Table truncated, full table size 3390 Kbytes.




Supplementary data files not provided

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