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Sample GSM1508 Query DataSets for GSM1508
Status Public on Apr 18, 2002
Title prp4-TempShift-60mins_5
Sample type RNA
 
Channel 1
Source name SS330 (wt) @ 37 deg for 60 mins
Organism Saccharomyces cerevisiae
Extracted molecule total RNA
 
Channel 2
Source name SRY4-1a (prp4-1) @ 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 = Slide4-36
 
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 2150 23340 120 341 429 309 332 338 89 27 17 0 748 777 345 208 215 60 95 90 0 0.017 0.17 0.232 0.734 1.299 0.121 0.044 120 613 -5.907 9 540 97 569 0 0.085163698 -3.5536176 -5.999886119 2.893831502 31
2 2320 23340 100 366 470 283 322 330 90 41 30 0 249 262 94 200 207 55 45 23 0 0.898 2.387 2.458 3.837 5.335 0.952 0.157 80 395 -0.155 44 49 148 62 -50 -10000 -10000 0.153297305 0.7312735 33
3 2500 23340 100 374 421 180 350 350 85 33 17 0 252 259 75 200 206 55 48 22 0 0.462 1.203 1.934 3.473 4.074 0.52 0.08 80 432 -1.115 24 52 71 59 -50 -10000 -10000 -10000 -10000 -10000
4 2670 23340 100 397 501 302 353 352 82 33 26 0 235 275 127 207 214 55 38 21 0 1.571 2.176 2.423 4.207 6.105 1.605 0.2 80 432 0.652 44 28 148 68 -50 -10000 -10000 0.153297305 0.7312735 33
5 2840 23340 100 394 494 305 344 348 86 42 23 0 282 298 81 212 218 55 61 31 0 0.714 1.744 1.71 4.056 6.973 1.029 0.175 80 425 -0.485 50 70 150 86 -50 -10000 -10000 -0.336446562 0.813784174 4
6 3040 23340 120 2739 2765 1033 346 351 96 100 98 0 3034 3009 1204 216 223 74 99 97 0 0.849 0.866 0.867 1 1.155 0.838 0.936 120 518 -0.236 2393 2818 2419 2793 0 1.203659026 0.267426762 0.389185601 0.156986248 15
7 3210 23340 120 709 757 272 336 349 87 92 84 0 541 558 157 210 217 60 98 95 0 1.127 1.21 1.105 1.36 0.973 1.02 0.574 120 483 0.172 373 331 421 348 0 1.582184458 0.661917806 0.601589649 0.301059166 14
8 3370 23340 100 411 621 546 336 340 79 48 33 0 242 310 190 209 216 59 33 25 0 2.273 2.822 2.289 5.581 10.984 1.868 0.489 80 390 1.184 75 33 285 101 -50 -10000 -10000 0.153297305 0.7312735 33
9 3560 23340 130 537 623 327 344 348 90 77 53 0 2226 2339 1179 209 218 55 100 100 0 0.096 0.131 0.108 0.213 0.33 0.085 0.204 120 598 -3.386 193 2017 279 2130 0 0.151086199 -2.72655621 -2.652501747 0.074054463 2
10 3740 23340 110 2445 2452 486 340 347 92 100 100 0 1305 1305 277 214 224 57 100 100 0 1.929 1.936 1.964 1.983 0.39 1.829 0.914 80 450 0.948 2105 1091 2112 1091 0 2.701092449 1.433543019 0.494892624 0.938650395 2
11 3890 23340 100 411 515 322 334 348 99 43 22 0 217 240 100 210 216 58 26 12 0 11 6.033 1.943 5.122 8.957 1.621 0.337 80 400 3.459 77 7 181 30 -50 -10000 -10000 0.153297305 0.7312735 33
12 4070 23340 100 410 558 389 334 342 100 45 27 0 243 273 120 208 213 54 41 26 0 2.171 3.446 2.857 4.204 4.709 1.547 0.323 80 428 1.119 76 35 224 65 -50 -10000 -10000 0.153297305 0.7312735 33
13 4240 23340 100 383 559 472 326 333 84 42 30 0 223 275 163 212 216 51 35 22 0 5.182 3.698 2.033 6.623 15.278 1.778 0.437 80 433 2.373 57 11 233 63 -50 -10000 -10000 0.153297305 0.7312735 33
14 4420 23340 100 365 439 204 319 331 83 37 26 0 235 258 94 212 218 54 32 16 0 2 2.609 1.903 3.35 4.392 0.953 0.241 80 428 1 46 23 120 46 -50 -10000 -10000 0.153297305 0.7312735 33
15 4590 23340 100 389 439 187 331 341 90 38 17 0 273 272 71 217 223 59 46 20 0 1.036 1.964 1.78 3.735 5.772 0.402 0.047 80 428 0.051 58 56 108 55 -50 -10000 -10000 -10000 -10000 -10000
16 4770 23340 100 401 525 415 356 368 98 38 23 0 257 291 150 223 228 59 40 18 0 1.324 2.485 2.451 5.864 11.754 1.512 0.314 80 444 0.404 45 34 169 68 -50 -10000 -10000 -0.370389178 0 1
17 4940 23340 100 376 486 316 346 349 91 33 26 0 228 268 132 213 220 54 32 16 0 2 2.545 2.412 3.632 3.805 1.211 0.302 80 444 1 30 15 140 55 -50 -10000 -10000 0.277892894 0.512769819 3
18 5120 23340 100 332 436 271 328 332 79 32 23 0 231 254 90 206 215 58 32 13 0 0.16 2.25 2.739 6.111 12.126 1.158 0.228 80 435 -2.644 4 25 108 48 -50 -10000 -10000 0.006225204 0.843351169 3
19 5310 23320 120 517 613 374 340 349 88 70 50 0 529 547 175 215 220 55 95 90 0 0.564 0.822 0.661 1.411 1.99 0.655 0.241 120 581 -0.827 177 314 273 332 0 0.843287594 -0.245903364 -0.819238337 0.760465334 11
20 5500 23310 120 1347 1368 529 349 357 84 99 97 0 1435 1559 853 211 216 51 98 96 0 0.815 0.756 0.723 1.027 0.947 0.635 0.797 120 518 -0.294 998 1224 1019 1348 0 1.159143583 0.213059284 -0.013472311 0.206463318 19

Total number of rows: 5760

Table truncated, full table size 1171 Kbytes.




Supplementary data files not provided
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