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Sample GSM11051 Query DataSets for GSM11051
Status Public on Dec 31, 2003
Title VREI_SI009_2-12-01
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 1 mRNA
Organism Caenorhabditis elegans
Extracted molecule total RNA
 
 
Description glp-4 adult prep 1 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 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
2761835 9580 14113 285 227 9777 13089 7767 9670 52 306 2280 17910 90 96 88 100 98 0 0 1 0 1.494 1.1686423 1.505 2.248
2761837 3578 3568 287 227 2934 3035 1753 1692 80 455 2450 17930 110 86 85 87 83 0 0 1 0 1.015 0.6116453 1.505 1.528
2761839 853 875 283 218 865 913 317 300 32 225 2620 17920 70 84 84 100 96 0 0 1 0 1.153 0.7949363 1.505 1.735
2761841 6787 2153 323 228 6359 1959 3506 954 52 338 2770 17930 90 100 100 100 98 0 0 1 0 .298 -1.1584293 1.505 .448
2761843 2157 6958 304 231 3407 7085 2877 5772 80 483 2920 17910 110 88 75 100 100 0 0 1 0 3.630 2.4499573 1.505 5.464
2761845 801 1345 305 222 938 1724 483 1467 32 231 3090 17930 70 93 87 96 96 0 0 1 0 2.264 1.7689253 1.505 3.408
2761847 7351 10951 312 237 6068 8546 3306 4946 80 511 3250 17920 110 98 97 100 98 0 0 1 0 1.522 1.1959773 1.505 2.291
2761849 676 1197 296 247 770 1007 433 563 32 148 3390 17910 60 71 50 81 75 0 0 1 0 2.500 1.9118833 1.505 3.763
2761851 34577 1550 316 238 28147 1473 13715 786 80 518 3570 17920 110 100 100 92 90 0 0 1 0 .038 -4.1078033 1.505 .058
2761853 2397 1438 329 243 2490 1401 831 492 52 323 3720 17930 90 100 100 98 96 0 0 1 0 .578 -0.2009133 1.505 .870
2761855 15171 20386 328 259 11891 16434 6348 8505 80 493 3880 17920 110 95 91 96 91 0 0 1 0 1.356 1.0292763 1.505 2.041
2761857 2756 1277 328 256 2623 1184 1433 531 80 405 4040 17920 100 77 75 63 3 0 0 1 0 .421 -0.6597233 1.505 .633
2761859 3772 1466 323 234 6442 2164 5965 1806 80 413 4200 17930 100 90 85 82 76 0 0 1 0 .357 -0.8943223 1.505 .538
2761861 1368 1119 321 239 1300 1082 615 506 80 413 4360 17930 100 83 82 87 83 0 0 1 0 .840 0.3391373 1.505 1.265
2761863 1793 1834 304 245 2013 2162 1530 1605 52 350 4520 17930 90 98 96 100 100 0 0 1 0 1.067 0.6834723 1.505 1.606
2761865 2777 2027 310 252 2686 2011 713 468 52 363 4680 17930 90 98 98 100 100 0 0 1 0 .719 0.1150333 1.505 1.083
2761867 14900 8341 309 244 14904 8035 4082 1779 52 355 4840 17930 90 100 100 100 100 0 0 1 0 .555 -0.2601523 1.505 .835
2761869 2868 2462 308 247 3025 2433 911 558 52 354 5000 17930 90 100 100 100 100 0 0 1 0 .865 0.3807293 1.505 1.302
2761871 5667 4059 313 265 5709 4253 1372 805 52 344 5160 17930 90 100 100 100 100 0 0 1 0 .709 0.0935603 1.505 1.067
2761873 10179 1556 346 265 9034 1434 3192 526 80 442 5320 17930 110 100 100 95 91 0 0 1 0 .131 -2.3364283 1.505 .198

Total number of rows: 21632

Table truncated, full table size 2395 Kbytes.




Supplementary data files not provided

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