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Sample GSM11082 Query DataSets for GSM11082
Status Public on Dec 31, 2003
Title VREI_A001_7-21-01
Sample type RNA
 
Channel 1
Source name wt mixed reference mRNA
Organism Caenorhabditis elegans
Extracted molecule total RNA
 
Channel 2
Source name TP01 mid-L3 prep 1 mRNA
Organism Caenorhabditis elegans
Extracted molecule total RNA
 
 
Description TP01 mid-L3 prep 1 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
GSE726 TP01 mid-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 6524 6423 111 98 6746 6653 3701 3773 80 485 2280 16440 100 100 97 100 98 0 0 1 0 .986 -0.2532573 .851 .839
2678577 443 479 111 99 455 468 200 212 80 499 2460 16440 110 97 92 96 95 0 0 1 0 1.145 -0.0380063 .851 .974
2678579 444 469 113 99 483 443 277 218 80 406 2630 16430 100 90 83 91 85 0 0 1 0 1.118 -0.0724833 .851 .951
2678581 1650 1718 111 102 1762 1881 1073 1051 80 406 2790 16430 100 92 92 100 98 0 0 1 0 1.050 -0.1616533 .851 .894
2678583 1438 1617 108 99 1438 1597 521 415 80 477 2960 16430 110 100 98 100 100 0 0 1 0 1.141 -0.0424573 .851 .971
2678585 621 327 107 100 740 366 508 222 120 543 3140 16430 120 90 81 81 77 0 0 1 0 .442 -1.4111953 .851 .376
2678587 3217 5406 111 100 3127 5574 1456 2938 80 450 3300 16440 110 100 100 100 100 0 0 1 0 1.708 0.5400273 .851 1.454
2678589 296 305 111 99 334 363 187 198 80 438 3470 16430 100 80 70 88 82 0 0 1 0 1.114 -0.0770413 .851 .948
2678591 394 537 107 104 392 511 151 182 32 236 3650 16430 70 96 87 96 96 0 0 1 0 1.509 0.3606453 .851 1.284
2678593 378 399 112 105 491 477 321 297 80 439 3820 16440 100 91 83 87 85 0 0 1 0 1.105 -0.0877333 .851 .941
2678595 3004 3130 109 104 2606 2715 1090 1090 52 366 3980 16430 90 100 100 100 100 0 0 1 0 1.045 -0.1697453 .851 .889
2678597 305 324 109 103 434 453 325 320 80 440 4150 16440 100 78 70 86 82 0 0 1 0 1.128 -0.0603973 .851 .959
2678599 234 247 110 101 326 347 231 220 80 444 4320 16430 100 76 65 83 76 0 0 1 0 1.177 0.0028833 .851 1.002
2678601 423 432 112 101 424 435 215 172 52 354 4490 16430 90 92 78 100 98 0 0 1 0 1.064 -0.1424173 .851 .906
2678603 281 298 109 103 409 422 264 271 80 440 4660 16440 100 91 78 95 83 0 0 1 0 1.134 -0.0513993 .851 .965
2678605 1849 1564 109 101 1777 1626 1166 991 80 464 4830 16430 100 92 87 95 92 0 0 1 0 .841 -0.4839853 .851 .715
2678607 717 736 110 102 692 745 368 295 52 388 5010 16440 90 100 98 100 100 0 0 1 0 1.044 -0.1697453 .851 .889
2678609 386 332 110 101 485 390 237 191 52 343 5180 16450 90 100 96 96 92 0 0 1 0 .837 -0.4900513 .851 .712
2678611 2637 13464 111 101 2290 11877 1307 6538 80 472 5340 16440 100 95 92 100 98 0 0 1 0 5.290 2.1705663 .851 4.502
2678613 1146 1490 116 101 1160 1425 420 392 52 375 5520 16430 90 100 100 100 100 0 0 1 0 1.349 0.1991233 .851 1.148

Total number of rows: 20000

Table truncated, full table size 2177 Kbytes.




Supplementary data files not provided

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