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Sample GSM11045 Query DataSets for GSM11045
Status Public on Dec 31, 2003
Title VREI_SJ053_2-19-01
Sample type RNA
 
Channel 1
Source name wt mixed reference
Organism Caenorhabditis elegans
Extracted molecule total RNA
 
Channel 2
Source name glp-4 L3 prep 3
Organism Caenorhabditis elegans
Extracted molecule total RNA
 
 
Description glp-4 L3 prep 3 vs wt 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
GSE717 glp-4 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
2761835 3295 11525 632 241 5427 16045 4424 14583 120 537 1670 17380 120 91 81 93 92 0 0 1 0 4.237 2.5464623 1.379 5.842
2761837 3119 3908 706 262 3191 4094 1036 1121 120 498 1830 17380 130 99 97 100 100 0 0 1 0 1.511 1.0586633 1.379 2.083
2761839 1298 832 632 233 1286 817 344 258 52 258 1990 17380 80 88 71 92 88 0 0 1 0 .899 0.3103403 1.379 1.240
2761841 4197 3632 542 208 4403 3399 2923 2228 80 428 2160 17380 100 93 87 95 93 0 0 1 0 .937 0.3696063 1.379 1.292
2761843 4990 27686 523 207 4681 26709 1508 6686 52 340 2310 17380 90 98 98 100 100 0 0 1 0 6.152 3.0844043 1.379 8.482
2761845 1398 564 564 204 1619 1025 771 848 32 166 2480 17380 60 90 78 87 75 0 0 1 0 .432 -0.7490383 1.379 .595
2761847 5025 8296 537 203 4649 7760 1590 2623 80 460 2630 17390 110 100 98 100 100 0 0 1 0 1.803 1.3138263 1.379 2.486
2761849 1646 978 531 206 1604 970 648 469 80 332 2800 17390 100 88 81 88 83 0 0 1 0 .692 -0.0664273 1.379 .955
2761851 8625 783 540 214 14578 934 11338 706 156 635 2930 17400 140 94 92 47 16 0 0 1 0 .070 -3.3658713 1.379 .097
2761853 1768 1480 580 228 1722 1359 533 471 80 327 3110 17400 100 12 0 5 0 0 0 1 0 1.054 0.5390353 1.379 1.453
2761855 4613 5392 577 226 6560 7510 4861 5783 156 628 3270 17380 140 50 42 64 44 0 0 1 0 1.280 0.8196683 1.379 1.765
2761857 2047 1065 545 209 1926 1064 542 401 80 378 3430 17400 100 98 95 97 92 0 0 1 0 .570 -0.3473993 1.379 .786
2761859 5184 3599 518 201 7244 4974 4766 3165 52 324 3600 17400 90 100 98 100 100 0 0 1 0 .728 0.0057593 1.379 1.004
2761861 1134 805 514 199 1148 759 335 282 80 404 3750 17410 100 91 82 91 88 0 0 1 0 .977 0.4308203 1.379 1.348
2761863 1258 1149 521 205 1317 1155 366 224 52 334 3910 17410 90 96 90 100 100 0 0 1 0 1.281 0.8204853 1.379 1.766
2761865 1787 1308 516 214 1842 1279 463 294 52 333 4070 17410 90 100 100 100 100 0 0 1 0 .861 0.2473203 1.379 1.187
2761867 7912 9184 554 212 7910 9328 5540 6728 80 429 4220 17400 100 95 90 100 100 0 0 1 0 1.219 0.7493203 1.379 1.681
2761869 1733 1161 554 212 1702 1185 425 237 52 325 4390 17420 90 98 96 100 100 0 0 1 0 .805 0.1505603 1.379 1.110
2761871 3919 3671 548 208 3981 3632 1028 1006 52 321 4540 17420 90 100 100 100 100 0 0 1 0 1.027 0.5018213 1.379 1.416
2761873 5089 1222 556 217 5394 1129 3465 717 120 532 4710 17420 120 90 89 80 77 0 0 1 0 .222 -1.7083963 1.379 .306

Total number of rows: 21632

Table truncated, full table size 2393 Kbytes.




Supplementary data files not provided

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