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Sample GSM11086 Query DataSets for GSM11086
Status Public on Dec 31, 2003
Title VREI_A016_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 TP02 late L3 prep 2 mRNA
Organism Caenorhabditis elegans
Extracted molecule total RNA
 
 
Description TP02 late L3 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
GSE727 TP02 late-L3
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 2673 5513 123 91 3621 6891 3815 3375 80 540 1940 16070 110 100 98 100 100 0 0 1 0 2.126 0.7561693 .794 1.689
2678577 439 845 135 94 496 857 306 440 32 164 2080 16060 60 81 71 90 90 0 0 1 0 2.470 0.9723253 .794 1.962
2678579 323 505 135 89 430 651 284 448 80 452 2270 16070 100 73 58 92 91 0 0 1 0 2.213 0.8139353 .794 1.758
2678581 698 1067 128 89 1066 1919 912 1526 80 395 2440 16060 100 91 88 98 98 0 0 1 0 1.716 0.4467863 .794 1.363
2678583 829 1181 127 94 923 1353 666 983 120 523 2610 16060 120 85 80 87 85 0 0 1 0 1.548 0.2986583 .794 1.230
2678585 916 801 134 92 1127 777 704 381 80 460 2770 16060 110 98 96 100 98 0 0 1 0 .907 -0.4739313 .794 .720
2678587 1908 4238 134 92 2270 5220 1371 3343 80 509 2960 16060 110 100 100 98 98 0 0 1 0 2.337 0.8921973 .794 1.856
2678589 568 793 149 91 663 700 380 367 52 357 3130 16040 90 88 84 98 96 0 0 1 0 1.675 0.4125113 .794 1.331
2678591 355 488 151 103 353 484 202 303 32 143 3270 16030 60 65 37 75 71 0 0 1 0 1.887 0.5840003 .794 1.499
2678593 403 314 141 93 551 611 412 477 80 537 3470 16060 110 81 66 98 96 0 0 1 0 .844 -0.5777673 .794 .670
2678595 1900 4044 136 91 1896 3882 876 1702 80 495 3640 16060 110 98 97 100 100 0 0 1 0 2.241 0.8318773 .794 1.780
2678597 434 556 133 94 610 673 495 487 80 443 3800 16050 100 77 62 87 86 0 0 1 0 1.535 0.2856983 .794 1.219
2678599 419 544 137 95 492 509 323 250 52 370 3980 16050 90 82 69 98 94 0 0 1 0 1.592 0.3391373 .794 1.265
2678601 660 931 136 94 704 827 492 494 52 372 4140 16050 90 80 73 100 100 0 0 1 0 1.597 0.3436923 .794 1.269
2678603 469 690 132 95 542 820 324 525 80 508 4320 16060 110 87 77 98 96 0 0 1 0 1.766 0.4874863 .794 1.402
2678605 1516 1522 129 95 1686 2057 836 1256 80 483 4490 16060 110 100 100 96 96 0 0 1 0 1.029 -0.2915923 .794 .817
2678607 575 1022 122 92 590 984 315 441 80 432 4660 16050 100 91 83 96 93 0 0 1 0 2.053 0.7057573 .794 1.631
2678609 492 605 127 94 495 621 237 284 80 428 4830 16060 100 88 85 98 96 0 0 1 0 1.400 0.1531573 .794 1.112
2678611 1465 13842 138 95 1499 11980 866 5710 80 429 5000 16050 100 90 88 100 98 0 0 1 0 10.359 3.0407173 .794 8.229
2678613 857 1460 132 96 977 1385 664 635 80 415 5160 16060 100 90 88 97 97 0 0 1 0 1.881 0.5791803 .794 1.494

Total number of rows: 20000

Table truncated, full table size 2172 Kbytes.




Supplementary data files not provided

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