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Sample GSM11093 Query DataSets for GSM11093
Status Public on Dec 31, 2003
Title VREI_A018_7-25-01
Sample type RNA
 
Channel 1
Source name wt mixed reference mRNA
Organism Caenorhabditis elegans
Extracted molecule total RNA
 
Channel 2
Source name TP04 early L4 prep 2 mRNA
Organism Caenorhabditis elegans
Extracted molecule total RNA
 
 
Description TP04 early L4 prep 2 hermaphrodites vs mixed reference
 
Submission date Oct 10, 2003
Last update date May 28, 2005
Contact name Valerie Reinke
E-mail(s) valerie.reinke@yale.edu
Phone 203-785-5228
Organization name Yale University School of Medicine
Department Genetics
Lab Reinke lab
Street address 333 Cedar St
City New Haven
State/province CT
ZIP/Postal code 06520
Country USA
 
Platform ID GPL539
Series (3)
GSE696 Gene expression in germ line
GSE729 TP04 early L4
GSE5069 Expression Profiling of MAP Kinase-Mediated Meiotic Progression in C. elegans

Data table header descriptions
ID_REF
CH1_median Channel 1 (635 nm, Cy5, Reference) median pixel intensity
CH2_median Channel 2 (532 nm, Cy3, Experiment) median pixel intensity
CH1_back Channel 1 Background
CH2_back Channel 2 Background
CH1_MEAN Channel 1 Mean
CH2_MEAN
CH1_SD Channel 1 Standard Deviation
CH2_SD Channel 2 Standard Deviation
pixels Number of pixels used to determine signal.
bpixels Number of pixels used to determine background.
x X-coordinate of the center of the feature-indicator associated with the feature, where (0,0) is the top left of the image
y Y-coordinate of the center of the feature-indicator associated with the feature, where (0,0) is the top left of the image
diameter diameter in Ám of the feature-indicator
%>CH1_back+1SD percentage of feature pixels with intensities more than one standard deviation above the background pixel intensity, for Channel 1
%>CH1_back+2SD percentage of feature pixels with intensities more than two standard deviations above the background pixel intensity, for Channel 1
%>CH2_back+1SD percentage of feature pixels with intensities more than one standard deviation above the background pixel intensity, for Channel 2
%>CH2_back+2SD percentage of feature pixels with intensities more than two standard deviations above the background pixel intensity, for Channel 2
CH1_%Sat percentage of pixel saturation within feature for Channel 1
CH2_%Sat percentage of pixel saturation within feature for Channel 2
QUALITY
flag An extension of GenePix 3.0 flags described at http://twiki.med.yale.edu/twiki/bin/view/YMD/YMDFlagFields
ratio_calc (CH1_median-CH1_back)/(CH2_median-CH2_back)
VALUE log ratio (log2 of PRE_VALUE)
norm_factor Normalization factor calculated as described at http://twiki.med.yale.edu/twiki/bin/view/YMD/NormalizationAndFilterMethods
PRE_VALUE [(Experiment channel median intensity - background)/(Reference channel median intensity - background)]*(norm_factor)

Data table
ID_REF CH1_median CH2_median CH1_back CH2_back CH1_MEAN CH2_MEAN CH1_SD CH2_SD pixels bpixels x y diameter %>CH1_back+1SD %>CH1_back+2SD %>CH2_back+1SD %>CH2_back+2SD CH1_%Sat CH2_%Sat QUALITY flag ratio_calc VALUE norm_factor PRE_VALUE
2678575 2077 3387 135 77 2515 3925 1574 1755 80 517 1480 16800 110 98 98 100 100 0 0 1 0 1.704 0.4987613 .829 1.413
2678577 332 357 150 84 331 364 159 164 32 205 1610 16790 70 59 37 87 81 0 0 1 0 1.500 0.3138263 .829 1.243
2678579 292 620 136 79 317 619 182 319 80 467 1800 16790 100 66 46 90 87 0 0 1 0 3.468 1.5230603 .829 2.874
2678581 476 9524 130 78 831 10351 974 5641 80 404 1980 16780 100 90 80 100 98 0 0 1 0 27.301 4.4998463 .829 22.625
2678583 628 936 127 81 731 943 417 225 80 484 2140 16780 110 97 95 100 100 0 0 1 0 1.707 0.4997823 .829 1.414
2678585 389 1355 126 77 445 1448 241 656 80 503 2320 16770 110 92 71 100 100 0 0 1 0 4.859 2.0097053 .829 4.027
2678587 1074 3836 135 78 1363 5054 753 3143 80 537 2490 16780 110 100 100 100 100 0 0 1 0 4.002 1.7298793 .829 3.317
2678589 291 444 132 82 303 409 142 135 32 216 2670 16760 70 81 50 96 87 0 0 1 0 2.277 0.9160943 .829 1.887
2678591 235 315 142 87 262 317 177 170 32 142 2810 16750 60 50 21 75 71 0 0 1 0 2.452 1.0229003 .829 2.032
2678593 273 196 141 82 333 304 225 223 80 551 2990 16770 110 58 43 83 75 0 0 1 0 .864 -0.4819693 .829 .716
2678595 974 1368 146 80 1252 1467 782 866 80 484 3170 16780 110 100 97 96 93 0 0 1 0 1.556 0.3662523 .829 1.289
2678597 457 453 146 76 437 448 196 200 80 421 3340 16770 100 86 77 92 87 0 0 1 0 1.212 0.0071963 .829 1.005
2678599 265 307 140 80 289 305 153 184 52 285 3500 16750 80 63 46 80 78 0 0 1 0 1.816 0.5897633 .829 1.505
2678601 288 394 133 85 303 368 136 139 32 230 3670 16760 70 71 40 93 84 0 0 1 0 1.994 0.7242143 .829 1.652
2678603 308 525 133 80 340 485 199 261 52 295 3840 16750 80 67 51 94 90 0 0 1 0 2.543 1.0751903 .829 2.107
2678605 884 793 144 81 986 900 635 529 80 451 4020 16760 100 93 92 93 92 0 0 1 0 .962 -0.3273483 .829 .797
2678607 444 975 144 82 454 929 182 371 80 462 4190 16760 100 87 75 96 95 0 0 1 0 2.977 1.3027583 .829 2.467
2678609 368 931 138 81 409 903 184 245 52 360 4370 16760 90 90 73 100 100 0 0 1 0 3.696 1.6149453 .829 3.063
2678611 1459 12242 140 80 1411 10347 560 4603 80 420 4530 16760 100 95 95 100 100 0 0 1 0 9.221 2.9337613 .829 7.641
2678613 503 631 136 80 523 634 243 293 80 432 4700 16760 100 91 78 92 91 0 0 1 0 1.501 0.3149863 .829 1.244

Total number of rows: 20000

Table truncated, full table size 2189 Kbytes.




Supplementary data files not provided

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