NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM1502 Query DataSets for GSM1502
Status Public on Apr 16, 2002
Title prp4-TempShift-5mins_5
Sample type RNA
 
Channel 1
Source name SS330 (wt) @ 37 deg for 5mins
Organism Saccharomyces cerevisiae
Extracted molecule total RNA
 
Channel 2
Source name SRY4-1a (prp4-1) @ 37 deg for 5 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 = Slide4-33
 
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 2060 22710 120 412 507 331 380 403 120 31 18 0 1056 1205 791 206 216 67 96 92 0 0.038 0.127 0.233 1.133 3.632 0.05 0.022 120 597 -4.731 32 850 127 999 0 0.080644252 -3.63228449 -6.531682153 2.745970093 32
2 2230 22720 70 715 734 357 422 446 156 62 50 0 283 352 166 218 229 64 50 43 0 4.508 2.328 2.622 3.773 3.387 1.451 0.439 32 222 2.172 293 65 312 134 -100 -10000 -10000 0.306027263 0.389053057 38
3 2430 22690 100 492 510 166 429 453 137 26 11 0 299 318 137 224 240 79 48 21 0 0.84 0.862 1.284 3.889 13.772 0.506 0.168 80 459 -0.252 63 75 81 94 -50 -10000 -10000 0.553485145 0 1
4 2590 22710 90 761 872 426 504 571 257 50 26 0 356 396 154 256 286 129 42 15 0 2.57 2.629 2.403 4.505 5.722 1.608 0.411 52 378 1.362 257 100 368 140 -100 -10000 -10000 0.306027263 0.389053057 38
5 2780 22690 100 487 557 238 482 551 270 13 5 0 298 314 116 252 279 126 20 5 0 0.109 1.21 1.993 3.173 6.289 1.509 0.418 80 417 -3.202 5 46 75 62 -50 -10000 -10000 0.066706629 0.133724966 6
6 2930 22710 120 3893 3852 1771 451 465 121 99 96 0 3569 3444 1864 237 248 84 95 95 0 1.033 1.06 1.066 1.576 2.321 0.99 0.938 120 515 0.047 3442 3332 3401 3207 0 1.278524673 0.354480002 0.347406984 0.144272828 15
7 3120 22710 110 1268 1219 289 425 436 113 100 97 0 726 739 216 224 230 65 100 98 0 1.679 1.542 1.579 1.696 0.755 1.377 0.787 80 500 0.748 843 502 794 515 0 2.038992945 1.027856783 0.924199272 0.236629626 15
8 3310 22690 100 391 492 329 390 394 93 27 17 0 219 267 141 208 218 57 26 16 0 0.091 1.729 2.453 6.987 11.231 1.421 0.41 80 428 -3.459 1 11 102 59 -50 -10000 -10000 0.306027263 0.389053057 38
9 3460 22700 110 1826 2069 844 392 401 93 100 100 0 2263 2598 1430 209 219 57 100 100 0 0.698 0.702 0.707 0.809 0.371 0.608 0.884 80 435 -0.518 1434 2054 1677 2389 0 0.868775201 -0.202945172 -0.26674718 0.063802007 2
10 3640 22700 110 1874 1901 368 392 401 93 100 100 0 1059 1084 214 211 220 69 100 100 0 1.748 1.729 1.803 1.779 0.435 1.567 0.861 80 513 0.805 1482 848 1509 873 0 2.13700541 1.095590561 1.010218549 0.085372012 2
11 3840 22690 100 436 511 308 390 400 93 36 16 0 235 276 157 213 219 59 30 21 0 2.091 1.921 1.418 3.876 12.179 1.05 0.333 80 445 1.064 46 22 121 63 -50 -10000 -10000 0.306027263 0.389053057 38
12 4010 22690 100 434 514 277 397 401 93 28 17 0 229 271 146 214 226 73 28 13 0 2.467 2.053 1.572 4.214 7.271 0.866 0.267 80 426 1.303 37 15 117 57 -50 -10000 -10000 0.306027263 0.389053057 38
13 4190 22690 100 397 487 347 406 416 103 27 17 0 221 277 247 214 221 63 21 11 0 -1.286 1.286 1.777 3.56 5.026 1.151 0.572 80 434 Error -9 7 81 63 -50 -10000 -10000 0.306027263 0.389053057 38
14 4360 22690 100 440 511 268 411 419 97 32 16 0 216 262 163 222 230 68 17 12 0 -4.833 2.5 1.784 3.033 4.881 1.112 0.399 80 413 Error 29 -6 100 40 -50 -10000 -10000 0.306027263 0.389053057 38
15 4510 22700 100 635 668 201 418 426 122 67 42 0 424 461 164 223 235 118 82 40 0 1.08 1.05 0.989 1.672 2.277 0.748 0.424 80 435 0.11 217 201 250 238 0 1.325603188 0.406648977 0.305760094 0.100888884 2
16 4710 22680 100 436 477 164 420 425 113 23 10 0 239 269 120 222 231 66 25 16 0 0.941 1.213 2.028 4.62 8.067 0.696 0.169 80 476 -0.087 16 17 57 47 -50 -10000 -10000 0.307749064 0.488348261 5
17 4890 22680 100 407 465 225 412 423 99 21 12 0 230 251 108 222 227 60 23 12 0 -0.625 1.828 2.123 3.789 6.408 0.952 0.238 80 454 Error -5 8 53 29 -50 -10000 -10000 0.221544796 0.27870518 4
18 5060 22680 100 468 491 207 412 436 127 22 7 0 247 278 131 222 232 68 28 13 0 2.24 1.411 1.759 3.302 4.197 0.813 0.251 80 440 1.163 56 25 79 56 -50 -10000 -10000 0.216318214 0.326431345 5
19 5240 22690 110 925 1022 420 449 556 340 66 26 0 749 755 212 243 280 151 98 82 0 0.941 1.119 0.926 1.224 0.849 1.06 0.47 80 505 -0.088 476 506 573 512 0 1.168018759 0.224063445 -8.31E-05 0.213349091 16
20 5420 22680 120 4686 4703 2474 441 485 197 98 97 0 3378 3534 2155 241 260 126 95 93 0 1.353 1.294 1.368 1.651 1.7 1.208 0.949 120 566 0.436 4245 3137 4262 3293 0 1.671754968 0.741363405 0.699084688 0.117585566 19

Total number of rows: 5761

Table truncated, full table size 1163 Kbytes.




Supplementary data files not provided
| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap