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Sample GSM1503 Query DataSets for GSM1503
Status Public on Apr 16, 2002
Title prp4-TempShift-5mins_3
Sample type RNA
 
Channel 1
Source name SRY4-1a (prp4-1) @ 37 deg for 5 mins
Organism Saccharomyces cerevisiae
Extracted molecule total RNA
 
Channel 2
Source name SS330 (wt) @ 37 deg for 5mins
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 = Slide4-1048
 
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 2240 24150 110 87 176 255 84 85 12 37 30 0 235 747 991 37 38 7 100 100 0 0.015 0.13 0.124 0.167 6.776 0.022 0.008 80 520 -6.044 3 198 92 710 0 0.113903508 -3.134115912 -4.428803322 1.967906036 32
2 2410 24150 100 104 171 197 87 87 12 57 31 0 49 57 31 38 39 7 57 37 0 1.545 4.421 2.382 2.057 4.086 8.826 0.421 80 401 0.628 17 11 84 19 -50 -10000 -10000 0.023217726 0.303652804 19
3 2580 24150 100 97 122 87 84 85 12 50 22 0 71 72 17 38 39 8 97 90 0 0.394 1.118 0.476 0.489 3.36 4.398 0.278 80 423 -1.344 13 33 38 34 -50 -10000 -10000 -0.267998164 0 1
4 2760 24140 100 102 185 241 83 83 12 62 41 0 54 66 38 38 39 7 77 56 0 1.188 3.643 2.102 1.814 3.61 7.131 0.611 80 426 0.248 19 16 102 28 -50 -10000 -10000 0.023217726 0.303652804 19
5 2940 24140 120 165 174 52 82 83 12 100 99 0 145 147 25 38 39 8 100 100 0 0.776 0.844 0.792 0.804 1.385 1.018 0.703 120 496 -0.366 83 107 92 109 0 0.778014809 -0.362130479 -0.102489184 0.210191584 16
6 3110 24130 130 30793 29192 5033 83 133 490 100 100 0 26871 25471 4239 40 65 273 100 100 0 1.145 1.145 1.154 1.146 1.172 1.153 0.978 120 535 0.195 30710 26831 29109 25431 0 1.023531202 0.033555083 -0.140879505 0.182528639 16
7 3290 24130 120 22370 21912 2282 85 114 250 100 100 0 30340 29523 3443 40 53 118 100 100 0 0.735 0.74 0.741 0.743 1.112 0.735 0.98 120 493 -0.443 22285 30300 21827 29483 0 0.657972826 -0.603900092 -0.67768856 0.09745512 16
8 3460 24120 100 109 194 305 80 84 34 45 22 0 77 83 43 38 40 13 81 57 0 0.744 2.533 0.919 1.13 2.968 8.678 0.37 80 390 -0.427 29 39 114 45 -50 -10000 -10000 0.023217726 0.303652804 19
9 3650 24120 120 10246 10045 1949 78 79 12 100 100 0 6923 6963 1539 38 39 6 100 100 0 1.477 1.439 1.43 1.448 1.146 1.426 0.984 120 518 0.563 10168 6885 9967 6925 0 1.321625429 0.402313351 0.378073214 0.024240137 2
10 3830 24120 130 488 490 69 82 82 13 100 100 0 520 515 94 38 39 7 100 100 0 0.842 0.855 0.836 0.859 1.187 0.848 0.951 120 533 -0.248 406 482 408 477 0 0.777149892 -0.363735211 -0.29373689 0.069998322 2
11 3980 24110 100 87 213 452 85 86 14 27 18 0 46 62 61 38 40 7 53 28 0 0.25 5.333 1.5 1.705 4.845 8.426 0.73 80 366 -2 2 8 128 24 -50 -10000 -10000 0.023217726 0.303652804 19
12 4160 24110 100 105 192 308 88 89 13 58 37 0 49 61 45 39 40 7 56 32 0 1.7 4.727 2.542 2.245 3.025 8.845 0.532 80 399 0.766 17 10 104 22 -50 -10000 -10000 0.023217726 0.303652804 19
13 4330 24100 100 103 215 375 88 89 12 55 37 0 45 60 58 39 40 6 46 27 0 2.5 6.048 3.572 2.875 4.628 6.947 0.844 80 415 1.322 15 6 127 21 -50 -10000 -10000 0.023217726 0.303652804 19
14 4510 24100 100 103 237 481 87 88 13 51 30 0 47 60 49 39 39 7 51 31 0 2 7.143 1.667 2.233 4.653 10.544 0.805 80 421 1 16 8 150 21 -50 -10000 -10000 0.023217726 0.303652804 19
15 4700 24090 130 635 648 118 86 86 12 100 100 0 470 468 48 38 39 7 100 100 0 1.271 1.307 1.29 1.284 1.194 1.358 0.933 120 540 0.346 549 432 562 430 0 1.149023631 0.200408469 0.268412584 0.068004115 2
16 4860 24090 120 153 174 104 84 84 15 98 96 0 108 106 24 39 40 9 98 98 0 1 1.343 1.041 1.115 1.613 2.721 0.509 120 472 0 69 69 90 67 0 0.966312947 -0.049437604 0.205233203 0.173082293 14
17 5040 24090 100 91 116 93 80 82 15 41 18 0 74 77 21 39 40 10 95 81 0 0.314 0.947 0.523 0.493 3.445 4.359 0.252 80 395 -1.67 11 35 36 38 -50 -10000 -10000 0.138346343 0.200386958 8
18 5210 24080 100 77 99 80 76 77 11 22 16 0 64 65 15 39 40 8 91 73 0 0.04 0.885 0.444 0.478 4.392 5.946 0.196 80 411 -4.644 1 25 23 26 -50 -10000 -10000 0.022250174 0.263970376 12
19 5400 24080 130 319 331 104 75 77 15 100 100 0 214 213 33 39 40 8 100 100 0 1.394 1.471 1.384 1.433 1.332 1.665 0.831 120 556 0.48 244 175 256 174 0 1.259586827 0.332950574 0.197414346 0.23920624 19
20 5570 24080 130 7764 7575 1107 76 79 46 100 100 0 14738 14041 2489 39 40 8 100 100 0 0.523 0.536 0.537 0.552 1.35 0.529 0.981 120 508 -0.935 7688 14699 7499 14002 0 0.468783441 -1.093006486 -1.038608816 0.109819085 20

Total number of rows: 5761

Table truncated, full table size 1122 Kbytes.




Supplementary data files not provided
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