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Sample GSM11050 Query DataSets for GSM11050
Status Public on Dec 31, 2003
Title VREI_SJ090_2-19-01
Sample type RNA
 
Channel 1
Source name wt mixed stage reference
Organism Caenorhabditis elegans
Extracted molecule total RNA
 
Channel 2
Source name glp-4 L4 prep 4
Organism Caenorhabditis elegans
Extracted molecule total RNA
 
 
Description glp-4 L4 prep 4 vs mixed 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
GSE718 glp-4 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 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 4887 18713 293 196 8091 27946 6319 20380 156 751 990 17740 150 99 96 100 99 0 0 1 0 4.031 2.6401583 1.547 6.234
2761837 2746 3126 293 198 3347 3715 2343 2560 120 510 1180 17720 130 95 92 99 99 0 0 1 0 1.194 0.8844033 1.547 1.846
2761839 890 661 277 193 902 647 284 181 52 234 1320 17710 80 92 82 98 92 0 0 1 0 .763 0.2400093 1.547 1.181
2761841 3374 1791 305 193 5237 2866 3704 1986 120 528 1500 17730 130 99 98 100 99 0 0 1 0 .521 -0.3129393 1.547 .805
2761843 1270 10278 324 192 2605 23514 2229 20650 120 567 1660 17670 130 92 84 100 100 0 0 1 0 10.662 4.0435193 1.547 16.490
2761845 582 300 310 187 914 840 977 1355 80 429 1810 17700 110 67 42 60 32 0 0 1 0 .415 -0.6371093 1.547 .643
2761847 5194 13476 309 192 5224 13002 3277 7492 120 541 1980 17710 130 100 95 100 100 0 0 1 0 2.719 2.0724493 1.547 4.206
2761849 3043 941 400 225 3742 1654 2816 4290 80 403 2130 17700 110 43 12 31 7 0 0 1 -100 .271 -1.2549783 1.547 .419
2761851 44428 1344 380 219 41350 1266 12418 421 80 436 2290 17700 110 100 98 76 6 0 0 1 -100 .026 -4.6438563 1.547 .040
2761853 2813 2704 366 217 2727 2637 886 780 80 419 2450 17690 110 67 0 80 3 0 0 1 -100 1.016 0.6526013 1.547 1.572
2761855 19169 14614 419 242 17888 14025 5199 3631 80 380 2610 17690 110 100 98 100 100 0 0 1 -100 .767 0.2461043 1.547 1.186
2761857 2566 1009 335 191 2421 935 1069 421 120 490 2760 17690 120 100 100 94 87 0 0 1 0 .367 -0.8185793 1.547 .567
2761859 9179 4865 324 188 9412 4737 6922 3426 80 457 2930 17680 110 100 100 100 98 0 0 1 0 .528 -0.2915923 1.547 .817
2761861 856 567 313 196 899 606 230 201 52 335 3090 17700 90 100 94 94 88 0 0 1 0 .683 0.0799753 1.547 1.057
2761863 1109 1315 316 187 1113 1297 273 346 52 333 3250 17690 90 100 98 100 98 0 0 1 0 1.422 1.1375043 1.547 2.200
2761865 2248 996 340 189 2122 1057 571 256 52 270 3410 17680 90 98 98 100 100 0 0 1 0 .423 -0.6126373 1.547 .654
2761867 3686 3298 327 195 7491 5630 6676 4499 120 548 3560 17650 120 98 93 98 95 0 0 1 0 .924 0.5150063 1.547 1.429
2761869 1474 957 318 194 1451 918 334 217 52 326 3730 17690 90 100 98 100 98 0 0 1 0 .660 0.0299833 1.547 1.021
2761871 7551 3355 401 217 6687 3219 2548 1048 52 344 3880 17680 90 88 84 96 96 0 0 1 -100 .439 -0.5585173 1.547 .679
2761873 13359 2342 395 219 12612 2348 3878 694 80 424 4050 17680 100 100 100 100 100 0 0 1 -100 .164 -1.9827913 1.547 .253

Total number of rows: 21632

Table truncated, full table size 2382 Kbytes.




Supplementary data files not provided
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