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Sample GSM1506 Query DataSets for GSM1506
Status Public on Apr 16, 2002
Title prp4-TempShift-30mins_5
Sample type RNA
 
Channel 1
Source name SS330 (wt) @ 37 deg for 30 mins
Organism Saccharomyces cerevisiae
Extracted molecule total RNA
 
Channel 2
Source name SRY4-1a (prp4-1) @ 37 deg for 30 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 = Slide4-35
 
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 2580 23310 130 684 763 326 629 640 142 35 20 0 1688 1971 1032 447 455 107 97 91 0 0.044 0.088 0.177 0.548 0.83 0.026 0.011 120 680 -4.496 55 1241 134 1524 0 0.073133349 -3.773326757 -7.010693174 2.506895513 30
2 2730 23310 100 657 698 264 664 675 146 20 12 0 483 500 118 457 462 103 25 10 0 -0.269 0.791 2.552 4.182 7.501 0.36 0.049 80 363 Error -7 26 34 43 -50 -10000 -10000 -0.318332009 0.325367299 11
3 2900 23300 100 757 734 168 647 657 140 43 7 0 528 529 123 462 467 105 35 10 0 1.667 1.299 1.216 2.204 3.005 0.164 0.015 80 455 0.737 110 66 87 67 -50 -10000 -10000 -0.414797648 0 1
4 3080 23300 100 687 746 248 658 658 146 30 15 0 486 502 132 456 459 100 23 12 0 0.967 1.913 1.28 5.375 12.827 0.403 0.063 80 444 -0.049 29 30 88 46 -50 -10000 -10000 -0.318332009 0.325367299 11
5 3250 23300 100 802 828 246 645 654 140 55 28 0 574 591 150 446 461 103 57 37 0 1.227 1.262 1.71 2.926 4.099 0.236 0.026 80 449 0.295 157 128 183 145 -50 -10000 -10000 -0.122014013 0.448427779 7
6 3450 23310 120 6268 6244 2325 641 651 144 100 100 0 5903 5617 2298 438 456 100 99 99 0 1.03 1.082 1.065 1.15 0.363 1.051 0.964 120 580 0.042 5627 5465 5603 5179 0 1.191486127 0.252762154 0.291128696 0.082393423 14
7 3620 23300 110 1749 1733 379 648 652 145 100 100 0 1238 1220 251 450 463 110 100 100 0 1.397 1.409 1.399 1.481 0.535 1.283 0.791 80 448 0.483 1101 788 1085 770 0 1.602902205 0.680686408 0.604411277 0.214309146 15
8 3780 23300 100 737 812 303 647 653 145 37 27 0 473 508 160 451 459 112 28 15 0 4.091 2.895 1.798 3.046 3.8 0.664 0.146 80 438 2.032 90 22 165 57 -50 -10000 -10000 -0.318332009 0.325367299 11
9 3980 23310 130 2589 2735 1009 633 642 138 100 99 0 5817 5774 2727 444 450 99 100 100 0 0.364 0.394 0.379 0.441 0.214 0.37 0.91 120 569 -1.458 1956 5373 2102 5330 0 0.424727887 -1.235389259 -1.203360513 0.032028746 2
10 4150 23310 120 3414 3227 1147 630 634 146 100 99 0 2260 2156 775 445 454 103 98 96 0 1.534 1.518 1.521 1.859 2.354 1.448 0.922 120 474 0.617 2784 1815 2597 1711 0 1.766823218 0.821157696 0.942203673 0.121045977 2
11 4300 23300 100 670 732 240 617 619 138 41 18 0 462 475 120 436 447 108 20 6 0 2.038 2.949 1.386 2.808 3.351 0.385 0.06 80 391 1.027 53 26 115 39 -50 -10000 -10000 -0.318332009 0.325367299 11
12 4480 23300 100 712 800 346 629 634 137 43 23 0 445 478 146 442 448 99 27 13 0 27.667 4.75 2.808 4.869 6.205 0.716 0.126 80 427 4.79 83 3 171 36 -50 -10000 -10000 -0.318332009 0.325367299 11
13 4650 23300 100 655 751 314 635 637 139 27 18 0 447 455 127 436 444 102 18 7 0 1.818 6.105 1.838 4.483 7.007 0.481 0.053 80 444 0.862 20 11 116 19 -50 -10000 -10000 -0.318332009 0.325367299 11
14 4830 23300 100 717 752 233 632 649 139 38 22 0 442 476 123 439 445 97 27 11 0 28.333 3.243 2.18 3.1 3.011 0.225 0.028 80 440 4.824 85 3 120 37 -50 -10000 -10000 -0.318332009 0.325367299 11
15 5000 23300 100 701 745 202 655 665 136 33 20 0 574 579 158 454 460 105 53 30 0 0.383 0.72 1.154 1.729 1.873 0.308 0.057 80 444 -1.383 46 120 90 125 -50 -10000 -10000 1.324264887 0 1
16 5180 23300 100 639 688 210 627 641 147 21 12 0 441 454 102 429 436 104 20 5 0 1 2.44 1.161 3.137 4.989 0.058 0.001 80 444 0 12 12 61 25 -50 -10000 -10000 -0.429122122 0 1
17 5350 23300 100 622 698 349 606 619 137 25 13 0 428 435 102 403 413 96 18 8 0 0.64 2.875 1.696 4.184 6.28 0.348 0.023 80 444 -0.644 16 25 92 32 -50 -10000 -10000 0.011860272 0.162999389 3
18 5530 23300 100 524 545 168 585 587 145 11 2 0 353 373 115 390 399 96 21 2 0 1.649 2.353 1.245 2.206 2.773 0.396 0.061 80 486 0.721 -61 -37 -40 -17 -50 -10000 -10000 0.006167312 0.512402401 3
19 5740 23300 120 947 1025 354 603 615 147 80 55 0 1137 1142 302 424 428 97 97 95 0 0.482 0.588 0.509 0.752 1.146 0.467 0.343 120 601 -1.051 344 713 422 718 0 0.578667626 -0.789193162 -0.509671589 0.30109497 16
20 5920 23280 120 6284 6524 3236 580 595 148 100 100 0 4397 4666 2334 420 426 91 100 100 0 1.434 1.4 1.396 1.447 0.349 1.363 0.957 120 543 0.52 5704 3977 5944 4246 0 1.656765031 0.728369008 0.55279444 0.222514409 19

Total number of rows: 5760

Table truncated, full table size 1173 Kbytes.




Supplementary data files not provided
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