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Sample GSM11052 Query DataSets for GSM11052
Status Public on Dec 31, 2003
Title VREI_SI041_2-15-01
Sample type RNA
 
Channel 1
Source name wt mixed reference RNA
Organism Caenorhabditis elegans
Extracted molecule total RNA
 
Channel 2
Source name glp-4 adult prep 2 mRNA
Organism Caenorhabditis elegans
Extracted molecule total RNA
 
 
Description glp-4 adult prep 2 vs reference
 
Submission date Oct 09, 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 GPL446
Series (3)
GSE696 Gene expression in germ line
GSE715 glp-4 adults
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 µm 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
2761835 20726 39299 448 327 14985 31806 9979 19647 80 461 2070 18190 110 98 93 100 96 0 0 1 0 1.922 1.5563073 1.531 2.941
2761837 4067 4089 437 309 4773 4676 2770 2783 120 612 2220 18190 130 99 99 100 99 0 0 1 0 1.041 0.6726523 1.531 1.594
2761839 802 881 420 310 819 953 265 288 32 220 2390 18210 70 78 56 100 96 0 0 1 0 1.495 1.1940873 1.531 2.288
2761841 5286 2219 403 287 7570 3104 6568 2598 80 409 2540 18210 100 98 88 86 80 0 0 1 0 .396 -0.7226103 1.531 .606
2761843 2280 11002 409 288 3875 21644 3343 20773 80 453 2700 18220 110 97 87 100 100 0 0 1 0 5.726 3.1315893 1.531 8.764
2761845 780 491 400 290 881 1448 433 2364 52 276 2860 18200 80 90 73 76 42 0 0 1 0 .529 -0.3040063 1.531 .810
2761847 13024 15946 401 292 10091 12638 5640 6642 80 526 3020 18200 110 97 96 100 97 0 0 1 0 1.240 0.9244803 1.531 1.898
2761849 2731 2950 395 280 2726 2902 1175 1153 32 218 3180 18210 70 100 93 100 100 0 0 1 0 1.143 0.8065303 1.531 1.749
2761851 29347 1228 350 269 34127 1449 23237 929 120 571 3350 18210 120 97 96 90 84 0 0 1 0 .033 -4.2933593 1.531 .051
2761853 3655 1953 350 281 3444 1938 1055 498 52 289 3500 18210 90 100 98 100 100 0 0 1 0 .506 -0.3695953 1.531 .774
2761855 8990 14622 391 288 12512 21167 9491 16544 156 792 3670 18200 140 95 94 95 94 0 0 1 0 1.667 1.3510633 1.531 2.551
2761857 6400 2654 432 294 6152 2547 1509 793 52 313 3810 18220 90 100 100 100 96 0 0 1 0 .395 -0.7249933 1.531 .605
2761859 20143 6850 419 285 17555 7139 11175 4818 52 361 3990 18220 90 96 90 100 98 0 0 1 0 .333 -0.9742623 1.531 .509
2761861 971 892 398 281 1023 913 334 276 52 324 4140 18220 90 94 86 100 94 0 0 1 0 1.066 0.7066413 1.531 1.632
2761863 1106 1879 396 281 1195 2005 582 1293 80 416 4290 18230 100 87 75 85 80 0 0 1 0 2.251 1.7845043 1.531 3.445
2761865 2263 1824 427 280 2546 1860 879 513 52 344 4460 18230 90 100 100 100 100 0 0 1 0 .841 0.3640123 1.531 1.287
2761867 25414 14132 428 273 21548 12483 9178 4859 52 354 4620 18230 90 100 100 100 100 0 0 1 0 .555 -0.2361643 1.531 .849
2761869 2356 2004 450 279 2389 1992 630 576 52 354 4780 18230 90 88 44 98 96 0 0 1 0 .905 0.4698863 1.531 1.385
2761871 10544 7288 432 269 9455 6887 3664 2094 52 301 4940 18230 90 98 98 100 100 0 0 1 0 .694 0.0867843 1.531 1.062
2761873 15345 1532 420 268 15969 1800 10704 1208 120 600 5080 18230 130 100 100 96 85 0 0 1 0 .085 -2.9434163 1.531 .130

Total number of rows: 21632

Table truncated, full table size 2394 Kbytes.




Supplementary data files not provided
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