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Sample GSM10511 Query DataSets for GSM10511
Status Public on Dec 24, 2003
Title VREI_SI045_10-11-00
Sample type RNA
 
Channel 1
Source name fem-3(gf) prep 1 mRNA
Organism Caenorhabditis elegans
Extracted molecule total RNA
 
Channel 2
Source name fem-1(lf) prep 1 mRNA
Organism Caenorhabditis elegans
Extracted molecule total RNA
 
 
Description fem-1(lf) vs fem-3(gf) prep 1
 
Submission date Sep 25, 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
GSE725 oocytes vs sperm
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 (log 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 12671 8386 491 181 10978 6910 4687 3374 80 445 2360 17090 110 100 100 100 100 0 0 1 0 .674 -0.3733273 1.146 .772
2761837 2533 1044 476 178 2474 1028 627 284 120 571 2510 17090 130 100 99 99 95 0 0 1 0 .421 -1.0528953 1.146 .482
2761839 844 461 469 177 809 461 187 146 52 254 2680 17090 80 88 78 96 92 0 0 1 0 .757 -0.2042333 1.146 .868
2761841 2651 3696 460 180 3140 4449 2014 3288 80 409 2820 17080 100 93 81 88 87 0 0 1 0 1.605 0.8789213 1.146 1.839
2761843 2666 1298 454 172 2954 1545 1748 934 80 439 2990 17100 100 97 95 100 96 0 0 1 0 .509 -0.7784323 1.146 .583
2761845 1764 1027 456 164 2309 1448 1245 987 12 104 3160 17100 50 100 100 100 100 0 0 1 0 .660 -0.4035423 1.146 .756
2761847 4083 1967 445 175 3913 1880 1775 934 120 556 3320 17080 120 100 98 92 92 0 0 1 0 .493 -0.8262333 1.146 .564
2761849 5306 1841 457 174 4923 1919 2131 954 52 254 3470 17080 90 100 100 100 100 0 0 1 0 .344 -1.3437323 1.146 .394
2761851 4084 46153 447 179 3615 39948 1801 23448 120 539 3620 17080 130 97 95 100 100 0 14 1 0 12.641 3.8561893 1.146 14.482
2761853 897 605 457 176 867 581 206 200 80 365 3780 17080 100 90 78 96 91 0 0 1 0 .975 0.1596293 1.146 1.117
2761855 9007 9537 465 174 9048 8868 5109 5196 156 724 3950 17100 140 95 94 92 91 0 0 1 0 1.096 0.3288363 1.146 1.256
2761857 957 566 466 175 931 552 191 146 80 425 4100 17090 110 96 88 98 93 0 0 1 0 .796 -0.1328943 1.146 .912
2761859 8531 8751 474 179 8165 8131 4316 4849 52 347 4270 17090 90 100 100 100 100 0 0 1 0 1.064 0.2856983 1.146 1.219
2761861 936 523 471 173 954 511 141 100 32 230 4420 17090 70 100 100 100 100 0 0 1 0 .753 -0.2142403 1.146 .862
2761863 607 463 470 171 622 460 107 74 32 236 4570 17090 70 65 37 100 100 0 0 1 0 2.131 1.2880633 1.146 2.442
2761865 1095 1842 468 171 1083 1846 201 282 52 362 4740 17100 90 100 92 100 100 0 0 1 0 2.665 1.6102283 1.146 3.053
2761867 5084 5239 460 173 5639 7050 3931 5399 80 428 4900 17100 100 95 93 95 92 0 0 1 0 1.096 0.3276873 1.146 1.255
2761869 1316 938 472 173 1273 904 345 326 52 282 5060 17090 80 96 90 96 92 0 0 1 0 .906 0.0538063 1.146 1.038
2761871 2452 2760 479 173 2420 2567 544 621 52 326 5210 17090 90 100 100 100 100 0 0 1 0 1.311 0.5868853 1.146 1.502
2761873 2560 11599 472 174 2419 10233 935 4072 120 587 5370 17090 130 97 96 100 100 0 0 1 0 5.472 2.6482353 1.146 6.269

Total number of rows: 21562

Table truncated, full table size 2397 Kbytes.




Supplementary data files not provided
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