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Sample GSM1509 Query DataSets for GSM1509
Status Public on Apr 18, 2002
Title prp4-TempShift-60mins_3
Sample type RNA
 
Channel 1
Source name SRY4-1a (prp4-1) @ 37 deg for 60 mins
Organism Saccharomyces cerevisiae
Extracted molecule total RNA
 
Channel 2
Source name SS330 (wt) @ 37 deg for 60 mins
Organism Saccharomyces cerevisiae
Extracted molecule total RNA
 
 
Description Prp4-1 and wt strains were grown at 26deg to A600 of 1.0, then an equal volume of 48deg media was added to bring the temperature to 37deg. Both strains were allowed to grow at 37deg and samples were taken at 0 (before shift), 5, 15, 30, 60, and 120 mins after shift to restrictive temperature.
Lot batch = Slide4-1051
 
Submission date Mar 19, 2002
Last update date May 27, 2005
Contact name Manuel Ares
E-mail(s) ares@biology.ucsc.edu
Phone 831 459-4628
Organization name UC Santa Cruz
Street address
City Santa Cruz
State/province CA
ZIP/Postal code 95064
Country USA
 
Platform ID GPL108
Series (1)
GSE34 Prp4-1 temperature shift

Data table header descriptions
ID_REF
X_COORD X-coordinate of spot
Y_COORD Y-coordinate of spot
SPOT_SIZE Size of the spot (diameter, in microns)
CH2_MEDIAN Channel 2 (Cy5/635) median pixel intensity - feature
CH2_MEAN Channel 2 (Cy5/635) mean pixel intensity - feature
CH2_SD Channel 2 (Cy5/635) standard deviation of pixel intensities - feature
CH2_BKD_MEDIAN Channel 2 (Cy5/635) median background intensity
CH2_BKD_MEAN Channel 2 (Cy5/635) mean background intensity
CH2_BKD_SD Channel 2 (Cy5/635) standard deviation of background
CH2_PERCNT_PIX_1SD Channel 2 (Cy5/635) percent of pixels 1 StDev above background
CH2_PERCNT_PIX_2SD Channel 2 (Cy5/635) percent of pixels 2 StDevs above background
CH2_PERCNT_PIX_SAT Channel 2 (Cy5/635) percent of pixels saturated
CH1_MEDIAN Channel 1 (Cy3/532) median pixel intensity - feature
CH1_MEAN Channel 1 (Cy3/532) mean pixel intensity - feature
CH1_SD Channel 1 (Cy3/532) standard deviation of pixel intensities - feature
CH1_BKD_MEDIAN Channel 1 (Cy3/532) median background intensity
CH1_BKD_MEAN Channel 1 (Cy3/532) mean background intensity
CH1_BKD_SD Channel 1 (Cy3/532) standard deviation of background
CH1_PERCNT_PIX_1SD Channel 1 (Cy3/532) percent of pixels 1 StDev above background
CH1_PERCNT_PIX_2SD Channel 1 (Cy3/532) percent of pixels 2 StDevs above background
CH1_PERCNT_PIX_SAT Channel 1 (Cy3/532) percent of pixels saturated
RATIO_MEDIANS Ratio of medians (Ch2/Ch1)
RATIO_MEANS Ratio of means (Ch2/Ch1)
MEDIAN_RATIOS Median of ratios
MEAN_RATIOS Mean of ratios
RATIO_SD Ratio standard deviation
RGN_RATIO Regression ratio
RGN_SQ_RATIO Regression square ratio
SPOT_PIXELS Number of feature pixels
BKD_PIXELS Number of background pixels
LOG_RATIO Log ratio (base 2)
CH2_MED_MINUS_BKD Channel 2 (Cy5/635) background subtracted median feature intensity
CH1_MED_MINUS_BKD Channel 1 (Cy3/532) background subtracted median feature intensity
CH2_MEAN_MINUS_BKD Channel 2 (Cy5/635) background subtracted mean feature intensity
CH1_MEAN_MINUS_BKD Channel 1 (Cy3/532) background subtracted mean feature intensity
FLAG User defined flag (default=0)
NORM_RATIO Normalized ratio of medians
VALUE Normalized log ratio (base 2)
MEAN_VALUE Average normalized log ratio for replicate spots
SD_VALUE Standard deviation of average normalized log ratio
NUM_REPLICATES Number of replicate spots used in average normalized log ratio

Data table
ID_REF X_COORD Y_COORD SPOT_SIZE CH2_MEDIAN CH2_MEAN CH2_SD CH2_BKD_MEDIAN CH2_BKD_MEAN CH2_BKD_SD CH2_PERCNT_PIX_1SD CH2_PERCNT_PIX_2SD CH2_PERCNT_PIX_SAT CH1_MEDIAN CH1_MEAN CH1_SD CH1_BKD_MEDIAN CH1_BKD_MEAN CH1_BKD_SD CH1_PERCNT_PIX_1SD CH1_PERCNT_PIX_2SD CH1_PERCNT_PIX_SAT RATIO_MEDIANS RATIO_MEANS MEDIAN_RATIOS MEAN_RATIOS RATIO_SD RGN_RATIO RGN_SQ_RATIO SPOT_PIXELS BKD_PIXELS LOG_RATIO CH2_MED_MINUS_BKD CH1_MED_MINUS_BKD CH2_MEAN_MINUS_BKD CH1_MEAN_MINUS_BKD FLAG NORM_RATIO VALUE MEAN_VALUE SD_VALUE NUM_REPLICATES
1 3030 23750 130 113 239 477 117 117 18 30 22 0 309 1032 1757 49 50 11 99 99 0 -0.015 0.124 0.063 0.099 6.189 0.036 0.018 120 663 Error -4 260 122 983 0 0.060200166 -4.054088729 -4.467266443 1.965444831 31
2 3190 23740 100 151 562 1374 109 111 17 63 51 0 70 125 199 47 49 9 71 56 0 1.826 5.808 1.975 2.2 3.8 7.102 0.913 80 361 0.869 42 23 453 78 -50 -10000 -10000 0.392399006 0.95002642 26
3 3380 23740 120 143 257 468 111 112 21 61 34 0 89 104 68 49 50 10 96 84 0 0.8 2.655 0.835 0.831 3.158 6.711 0.737 120 527 -0.322 32 40 146 55 0 0.767982115 -0.380855381 -0.456041483 0.075186102 2
4 3540 23750 100 128 444 1123 112 111 19 46 32 0 71 110 141 50 51 10 66 51 0 0.762 5.533 1.333 1.619 3.901 8.247 0.861 80 394 -0.392 16 21 332 60 -50 -10000 -10000 0.392399006 0.95002642 26
5 3730 23750 120 328 386 272 109 112 28 100 100 0 189 199 55 50 60 184 14 2 0 1.576 1.859 1.608 1.656 1.388 0.732 0.114 120 512 0.656 219 139 277 149 0 1.202744776 0.266330534 0.27202621 0.263227118 15
6 3910 23750 130 33890 34211 3242 104 107 26 100 100 0 41471 41102 3829 50 61 189 100 100 0 0.816 0.831 0.834 0.831 1.085 0.826 0.986 120 482 -0.294 33786 41421 34107 41052 0 0.659481921 -0.600594985 -0.907218369 0.295341107 16
7 4070 23750 120 24948 24810 2841 102 110 83 100 100 0 44017 43432 5032 50 55 44 100 100 0 0.565 0.57 0.571 0.57 1.108 0.563 0.984 120 452 -0.823 24846 43967 24708 43382 0 0.457032455 -1.129631475 -1.227710985 0.134846849 16
8 4240 23750 100 120 592 1590 92 101 92 18 17 0 80 145 222 49 54 48 37 15 0 0.903 5.208 1.092 1.13 4.367 7.205 0.914 80 374 -0.147 28 31 500 96 -50 -10000 -10000 0.392399006 0.95002642 26
9 4420 23750 130 16174 15744 4421 79 85 59 100 100 0 1142 1098 281 47 48 9 100 100 0 14.699 14.905 14.992 14.833 1.127 15.057 0.986 120 571 3.878 16095 1095 15665 1051 0 11.70839523 3.549471447 3.374430973 0.175040474 2
10 4600 23750 130 2723 2719 399 74 80 61 100 100 0 766 772 111 46 47 9 100 100 0 3.679 3.643 3.74 3.648 1.174 3.668 0.95 120 558 1.879 2649 720 2645 726 0 2.929088827 1.550451945 0.089638984 1.460812961 2
11 4760 23750 100 92 495 1299 67 68 19 57 40 0 55 95 144 46 47 8 50 33 0 2.778 8.735 3.583 3.477 3.227 9.236 0.937 80 379 1.474 25 9 428 49 -50 -10000 -10000 0.392399006 0.95002642 26
12 4940 23750 100 75 398 1125 60 62 9 65 45 0 49 82 135 45 46 8 33 17 0 3.75 9.135 4.246 3.582 4.034 8.859 0.883 80 412 1.907 15 4 338 37 -50 -10000 -10000 0.392399006 0.95002642 26
13 5110 23760 100 66 382 1083 56 57 9 51 37 0 51 78 107 45 46 7 46 27 0 1.667 9.879 2.542 2.558 3.951 10.566 0.905 80 412 0.737 10 6 326 33 -50 -10000 -10000 0.392399006 0.95002642 26
14 5290 23760 100 67 261 668 52 53 7 66 52 0 50 66 72 45 45 7 41 22 0 3 9.952 2.833 2.879 4.863 10.336 0.798 80 421 1.585 15 5 209 21 -50 -10000 -10000 0.392399006 0.95002642 26
15 5480 23760 130 1968 1947 296 51 52 7 100 100 0 229 229 37 44 45 7 100 100 0 10.362 10.249 10.306 10.331 1.184 10.254 0.956 120 583 3.373 1917 185 1896 185 0 7.844345225 2.971653029 2.655395082 0.316257947 2
16 5660 23760 130 159 172 76 51 51 7 100 100 0 77 79 19 44 44 6 98 93 0 3.273 3.457 3.323 3.508 1.558 4.125 0.711 120 526 1.71 108 33 121 35 0 2.191668259 1.132029442 1.234852226 0.648235557 13
17 5830 23760 120 85 109 104 49 49 7 99 97 0 84 89 23 43 44 6 99 98 0 0.878 1.304 0.916 0.947 1.789 3.568 0.428 120 461 -0.188 36 41 60 46 0 0.76264361 -0.390919064 0.906635368 0.787029799 10
18 6010 23760 120 70 88 87 48 48 7 91 74 0 78 79 19 44 44 7 99 91 0 0.647 1.143 0.655 0.723 2.299 4.05 0.356 120 497 -0.628 22 34 40 35 0 0.60630167 -0.721892299 0.900728902 0.908899324 14
19 6190 23760 130 505 523 126 47 47 7 100 100 0 170 171 25 45 45 7 100 100 0 3.664 3.778 3.626 3.755 1.273 4.044 0.893 120 531 1.873 458 125 476 126 0 2.745078065 1.456847177 1.304843703 0.330340558 18
20 6350 23760 130 9450 9312 1392 47 48 11 100 100 0 12191 12020 1567 45 46 8 100 100 0 0.774 0.774 0.784 0.77 1.102 0.769 0.982 120 531 -0.369 9403 12146 9265 11975 0 0.626475167 -0.674670771 -0.61571143 0.113993506 20

Total number of rows: 5761

Table truncated, full table size 1143 Kbytes.




Supplementary data files not provided

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