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Sample GSM10513 Query DataSets for GSM10513
Status Public on Dec 24, 2003
Title VREI_SI065_10-11-00
Sample type RNA
 
Channel 1
Source name fem-3(gf) prep 3 mRNA
Organism Caenorhabditis elegans
Extracted molecule total RNA
 
Channel 2
Source name fem-1(lf) prep 3 mRNA
Organism Caenorhabditis elegans
Extracted molecule total RNA
 
 
Description fem-1(lf) vs fem-3(gf) prep 3
 
Submission date Sep 25, 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
GSE725 oocytes vs sperm
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 (log 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 6351 6884 613 198 10333 10221 7947 8022 156 779 1990 16070 140 100 100 96 95 0 0 1 0 1.165 0.3884653 1.123 1.309
2761837 4020 2129 672 218 4258 2178 1384 799 156 750 2200 16090 150 100 100 97 96 0 0 1 0 .571 -0.6416043 1.123 .641
2761839 1600 1373 692 232 1620 1376 229 267 32 187 2350 16080 70 100 100 100 100 0 0 1 0 1.257 0.4967183 1.123 1.411
2761841 7186 11549 692 229 7223 12035 4894 9094 80 493 2500 16090 110 98 97 98 97 0 0 1 0 1.743 0.9693813 1.123 1.958
2761843 2366 2237 678 230 3909 3783 2781 2945 80 495 2680 16070 110 78 53 100 96 0 0 1 0 1.189 0.4168403 1.123 1.335
2761845 851 412 662 229 994 775 427 776 32 156 2810 16080 60 34 15 62 43 0 0 1 0 .968 0.1203523 1.123 1.087
2761847 6020 4406 669 232 7497 4641 4289 2732 120 570 2980 16060 120 98 97 97 97 0 0 1 0 .780 -0.1909973 1.123 .876
2761849 2711 635 683 232 5908 2007 5547 2231 120 405 3150 16070 120 93 89 84 74 0 0 1 0 .199 -2.1648843 1.123 .223
2761851 9544 57076 691 239 11818 45376 7724 23177 156 538 3300 16080 140 97 95 99 98 0 48 1 0 6.420 2.8499993 1.123 7.210
2761853 3337 1906 756 266 3345 1852 477 386 52 209 3460 16080 80 100 94 71 0 0 0 1 0 .635 -0.4860043 1.123 .714
2761855 15292 17910 726 254 17938 18566 10518 10465 156 809 3600 16080 150 100 99 95 95 0 0 1 0 1.212 0.4446673 1.123 1.361
2761857 3369 1796 748 263 3035 1709 799 516 80 464 3780 16080 110 100 100 100 100 0 0 1 0 .585 -0.6060353 1.123 .657
2761859 22490 23519 761 258 21193 21450 11841 12613 52 344 3940 16080 90 100 100 100 100 0 0 1 0 1.071 0.2654373 1.123 1.202
2761861 3167 1559 736 247 3140 1643 837 569 52 344 4100 16080 90 100 100 96 96 0 0 1 0 .540 -0.7226103 1.123 .606
2761863 2387 1677 735 244 2244 1584 683 648 52 297 4250 16070 80 94 90 88 88 0 0 1 0 .867 -0.0380063 1.123 .974
2761865 3921 5758 736 240 3574 5048 1543 2313 80 413 4420 16080 100 98 96 100 98 0 0 1 0 1.732 0.9605123 1.123 1.946
2761867 12371 15757 743 240 13248 16324 8521 10974 80 463 4580 16070 110 100 100 100 100 0 0 1 0 1.334 0.5840003 1.123 1.499
2761869 3337 2564 744 233 3436 2538 616 618 52 324 4740 16080 90 100 100 100 100 0 0 1 0 .899 0.0143553 1.123 1.010
2761871 7216 9851 771 240 6148 7354 3508 4463 80 378 4900 16090 100 93 91 98 97 0 0 1 0 1.491 0.7441613 1.123 1.675
2761873 6649 21895 787 239 8154 22670 4155 11527 156 627 5070 16080 140 100 100 100 99 0 0 1 0 3.694 2.0527643 1.123 4.149

Total number of rows: 21603

Table truncated, full table size 2437 Kbytes.




Supplementary data files not provided

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