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Sample GSM11042 Query DataSets for GSM11042
Status Public on Dec 31, 2003
Title VREI_SL022_2-21-01
Sample type RNA
 
Channel 1
Source name wt mixed reference mRNA
Organism Caenorhabditis elegans
Extracted molecule total RNA
 
Channel 2
Source name glp-4 L2 prep 2 mRNA
Organism Caenorhabditis elegans
Extracted molecule total RNA
 
 
Description glp-4 L2 prep 2 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
GSE716 glp-4 L2
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 12389 5981 605 390 11081 5335 4097 1855 52 286 2070 17180 80 98 98 96 92 0 0 1 0 .474 -0.3902453 1.609 .763
2761837 5588 6472 606 403 5152 6234 1726 1723 52 353 2220 17180 90 98 96 100 100 0 0 1 0 1.218 0.9708543 1.609 1.960
2761839 2666 2009 550 358 2619 1814 778 594 52 327 2390 17180 90 100 100 96 92 0 0 1 0 .780 0.3276873 1.609 1.255
2761841 2709 596 585 369 5314 1049 4467 801 120 538 2550 17170 120 97 95 62 50 0 0 1 0 .107 -2.5395203 1.609 .172
2761843 1103 4513 574 370 2334 8922 1967 7870 120 578 2730 17160 120 65 56 98 95 0 0 1 0 7.832 3.6554663 1.609 12.601
2761845 1088 854 551 374 1125 952 287 331 32 203 2890 17180 70 87 59 96 90 0 0 1 0 .894 0.5240643 1.609 1.438
2761847 4214 2635 579 387 5626 3770 3368 2327 156 904 3050 17170 150 100 100 97 97 0 0 1 0 .618 -0.0072323 1.609 .995
2761849 3100 1793 584 419 2867 1676 1067 505 32 180 3220 17180 70 100 93 100 100 0 0 1 0 .546 -0.1860653 1.609 .879
2761851 22573 831 587 405 26548 1225 18410 793 156 695 3360 17180 140 98 94 78 60 0 0 1 0 .019 -5.0115883 1.609 .031
2761853 3495 1816 585 413 3218 1613 1226 586 80 335 3530 17190 100 97 91 91 86 0 0 1 0 .482 -0.3658713 1.609 .776
2761855 5180 949 583 427 6849 1164 3310 663 120 540 3710 17180 130 100 100 80 64 0 0 1 0 .114 -2.4500843 1.609 .183
2761857 3589 1673 587 462 3401 1572 1244 546 80 368 3860 17190 100 100 98 90 88 0 0 1 0 .403 -0.6237103 1.609 .649
2761859 1421 548 591 426 1467 588 519 155 52 340 4010 17190 90 90 59 50 28 0 0 1 0 .147 -2.0770413 1.609 .237
2761861 2176 1418 590 417 2160 1382 604 396 52 344 4170 17200 90 100 100 94 90 0 0 1 0 .631 0.0229003 1.609 1.016
2761863 2176 1498 614 422 2092 1366 957 613 80 394 4330 17200 100 87 78 83 80 0 0 1 0 .689 0.1479583 1.609 1.108
2761865 3396 1618 653 452 3027 1460 1325 610 80 354 4490 17200 100 87 85 85 81 0 0 1 0 .425 -0.5479323 1.609 .684
2761867 7437 4410 643 466 6401 3818 3371 2222 80 408 4650 17190 100 97 96 88 85 0 0 1 0 .581 -0.0985063 1.609 .934
2761869 2823 1796 633 466 2769 1835 638 298 52 304 4820 17190 90 98 98 100 100 0 0 1 0 .607 -0.0335703 1.609 .977
2761871 5392 1523 624 426 4708 1374 2512 628 120 461 4970 17190 120 100 99 90 78 0 0 1 0 .230 -1.4344033 1.609 .370
2761873 6212 829 626 412 8017 1114 4394 594 156 662 5130 17180 140 99 99 81 61 0 0 1 0 .075 -3.0588943 1.609 .120

Total number of rows: 21632

Table truncated, full table size 2383 Kbytes.




Supplementary data files not provided

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