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Sample GSM11047 Query DataSets for GSM11047
Status Public on Dec 31, 2003
Title VREI_SG041_2-10-01
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
Organism Caenorhabditis elegans
Extracted molecule total RNA
 
 
Description glp-4 L4 prep 1 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 14953 16874 593 387 13637 27264 9681 23464 120 592 1750 17290 120 91 85 94 92 0 3 1 0 1.148 0.8844033 1.608 1.846
2761837 8568 8364 594 358 7948 8214 3606 3646 80 347 1910 17290 100 98 96 98 95 0 0 1 0 1.004 0.6906413 1.608 1.614
2761839 4739 4012 534 329 5935 5341 4621 5467 120 430 2080 17310 130 97 95 93 92 0 0 1 0 .876 0.4936473 1.608 1.408
2761841 10786 4591 459 278 9751 4996 3661 2491 120 468 2240 17270 120 100 100 98 95 0 0 1 0 .418 -0.5756153 1.608 .671
2761843 7080 31391 469 302 6483 25956 2804 15582 80 372 2400 17290 100 95 92 97 93 0 0 1 0 4.703 2.9183863 1.608 7.560
2761845 1816 1128 420 268 1741 1262 884 725 52 241 2550 17270 80 84 69 75 61 0 0 1 0 .616 -0.0145003 1.608 .990
2761847 9290 9539 443 291 8655 13428 3598 8675 120 611 2700 17270 120 92 91 96 94 0 0 1 0 1.045 0.7484613 1.608 1.680
2761849 5891 4611 443 285 6311 5558 3215 3055 32 231 2890 17270 70 100 100 100 96 0 0 1 0 .794 0.3516283 1.608 1.276
2761851 28284 1169 445 293 30798 1451 22101 1399 120 466 3060 17280 120 100 99 70 67 0 0 1 0 .031 -4.2933593 1.608 .051
2761853 4243 2636 404 268 4150 2686 1822 1412 80 319 3210 17270 100 96 92 91 88 0 0 1 0 .617 -0.0115883 1.608 .992
2761855 15169 15338 536 339 13781 15912 8986 11017 120 483 3370 17290 120 98 97 95 95 0 0 1 0 1.025 0.7207163 1.608 1.648
2761857 7360 2628 518 355 7547 3099 2134 1510 52 327 3530 17280 90 100 100 100 96 0 0 1 0 .332 -0.9050883 1.608 .534
2761859 12884 6611 457 294 15607 7951 10845 5855 52 343 3700 17270 90 98 96 94 94 0 0 1 0 .508 -0.2915923 1.608 .817
2761861 3124 2261 466 291 3537 2686 1666 1679 80 465 3850 17250 110 100 100 100 100 0 0 1 0 .741 0.2521733 1.608 1.191
2761863 3396 4058 413 256 3134 3919 1694 2284 80 396 4010 17270 100 90 86 88 85 0 0 1 0 1.275 1.0349203 1.608 2.049
2761865 3854 2168 327 215 3849 2526 1642 1267 80 379 4180 17250 100 95 93 96 96 0 0 1 0 .554 -0.1681233 1.608 .890
2761867 17561 11641 286 189 17659 10173 12046 6339 120 526 4340 17260 120 100 99 97 97 0 0 1 0 .663 0.0922073 1.608 1.066
2761869 2170 1464 299 195 2417 1760 1401 1074 80 359 4510 17270 100 95 92 97 96 0 0 1 0 .678 0.1243283 1.608 1.090
2761871 8202 4417 304 196 6941 3751 3323 1914 80 376 4660 17270 100 98 96 93 85 0 0 1 0 .534 -0.2192703 1.608 .859
2761873 17877 1789 304 183 15463 1646 6681 702 80 381 4810 17270 100 98 97 93 90 0 0 1 0 .091 -2.7661123 1.608 .147

Total number of rows: 21632

Table truncated, full table size 2408 Kbytes.




Supplementary data files not provided
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