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Sample GSM31803 Query DataSets for GSM31803
Status Public on Jul 01, 2005
Title Normal testis 9014
Sample type RNA
 
Channel 1
Source name Normal testis, donor with no known history of cancer
Organism Homo sapiens
Extracted molecule total RNA
 
Channel 2
Source name Universal Human Reference RNA (Stratagene)
Organism Homo sapiens
Extracted molecule total RNA
 
 
Description Normal testicular parenchyma from a 29 years old organ donor with no known history of cancer
Keywords = testis
Keywords = normal
Keywords = testicular neoplasm
Keywords = human
 
Submission date Oct 05, 2004
Last update date Mar 09, 2006
Contact name Rolf I Skotheim
E-mail(s) rolf.i.skotheim@rr-research.no
Phone +47 2293 4000
Fax +47 2293 5767
URL http://www.radium.no/cancerprevention
Organization name Rikshospitalet-Radiumhospitalet Medical Center, Institute for Cancer Research
Department Department of Cancer Prevention
Street address
City Oslo
ZIP/Postal code N-0310
Country Norway
 
Platform ID GPL885
Series (1)
GSE1818 Testicular germ cell tumors and their histological subgroups

Data table header descriptions
ID_REF
FLAG Boolean for measurement quality. 1=Feature with inadequate measurements, 0=Feature with good quality measurements
VALUE same as UNF_VALUE but with flagged values removed
Log2_NormalTestisCenteredRatio For features with FLAG=0: Log2(SampleRATIO/MedianRATIO of the three Normal testis samples); gives an indication of up- and downregulation in the sample relative to the mRNA level in normal testis
RATIO For features with FLAG=0: CH1_ProcessedSignal / CH2_ProcessedSignal
PositionX X-coordinate, pixel position, of feature centroid on the original scan (tif-image)
PositionY Y-coordinate, pixel position, of feature centroid on the original scan (tif-image)
CH1_SurrogateUsed The CH1 surrogate value used
CH2_SurrogateUsed The CH2 surrogate value used
CH1_ProcessedSignal The propagated CH1 feature signal, used further for computation of ratios and log2ratios
CH2_ProcessedSignal The propagated CH2 feature signal, used further for computation of ratios and log2ratios
CH1_ProcessedSigError Standard error of propagated CH1 feature signal
CH2_ProcessedSigError Standard error of propagated CH2 feature signal
CH1_AREA Total number of pixels used to compute CH1 feature statistics
CH2_AREA Total number of pixels used to compute CH2 feature statistics
CH1_MEAN Raw mean signal of feature in CH1
CH2_MEAN Raw mean signal of feature in CH2
CH1_MEDIAN Raw median signal of feature in CH1
CH2_MEDIAN Raw median signal of feature in CH2
CH1_SD Standard deviation of all inlier pixels per CH1 feature
CH2_SD Standard deviation of all inlier pixels per CH2 feature
CH1_BKD_AREA Total number of pixels used to compute local CH1 background statistics per spot
CH2_BKD_AREA Total number of pixels used to compute local CH2 background statistics per spot
CH1_BKD_MEAN Mean local background CH1 signal (local to corresponding feature)
CH2_BKD_MEAN Mean local background CH2 signal (local to corresponding feature)
CH1_BKD_MEDIAN Median local background CH1 signal (local to corresponding feature)
CH2_BKD_MEDIAN Median local background CH2 signal (local to corresponding feature)
CH1_BKD_SD Standard deviation of all inlier pixels per local CH1 background of each feature
CH2_BKD_SD Standard deviation of all inlier pixels per local CH2 background of each feature
CH1_NumSatPix Total number of CH1 saturated pixels per feature
CH2_NumSatPix Total number of CH2 saturated pixels per feature
CH1_IsSaturated Boolean flag indicating if a feature is saturated for CH1 or not. 1=Saturated (>50% of the pixels above the saturation threshold), 0=NotSaturated
CH2_IsSaturated Boolean flag indicating if a feature is saturated for CH2 or not. 1=Saturated (>50% of the pixels above the saturation threshold), 0=NotSaturated
CH1_IsFeatNonUnifOL Boolean flag indicating if a feature is a NonUniformity Outlier or not for CH1. 1=The feature is non-uniform in that the pixel noise of feature exceeds a threshold established for a "uniform" feature, 0=Uniform feature
CH2_IsFeatNonUnifOL Boolean flag indicating if a feature is a NonUniformity Outlier or not for CH2. 1=The feature is non-uniform in that the pixel noise of feature exceeds a threshold established for a "uniform" feature, 0=Uniform feature
CH1_IsBGNonUnifOL Boolean flag indicating if a feature is a Background NonUniformity Outlier or not for CH1. 1=The background is non-uniform in that the pixel noise of feature background exceeds a threshold established for a "uniform" background, 0=Uniform background
CH2_IsBGNonUnifOL Boolean flag indicating if a feature is a Background NonUniformity Outlier or not for CH2. 1=The background is non-uniform in that the pixel noise of feature background exceeds a threshold established for a "uniform" background, 0=Uniform background
CH1_IsFeatPopnOL Boolean flag indicating if a feature is a Population Outlier or not for CH1. Probes with replicate features on the microarray were examined using population statistics. 1=IsPopulationOutlier, 0=IsNotPopulationOutlier
CH2_IsFeatPopnOL Boolean flag indicating if a feature is a Population Outlier or not for CH2. Probes with replicate features on the microarray were examined using population statistics. 1=IsPopulationOutlier, 0=IsNotPopulationOutlier
CH1_BGSubSignal The net CH1 signal following the subtraction of the CH1 background from the raw mean CH1 signal
CH2_BGSubSignal The net CH2 signal following the subtraction of the CH2 background from the raw mean CH2 signal
CH1_BGSubSigError Propagated standard error as computed on net CH1 background subtracted signal
CH2_BGSubSigError Propagated standard error as computed on net CH2 background subtracted signal
CH1_IsWellAboveBG Boolean flag indicating if CH1 for a feature is WellAbove Background or not. 1=WellAboveBackground, 0=NotWellAboveBackground
CH2_IsWellAboveBG Boolean flag indicating if CH2 for a feature is WellAbove Background or not. 1=WellAboveBackground, 0=NotWellAboveBackground
IsNormalization A boolean flag which indicates if a feature is used to measure dye bias. 1=Feature used, 2=Feature not used.
CH1_DyeNormSignal The CH1 dye normalized signal
CH2_DyeNormSignal The CH2 dye normalized signal
CH1_DyeNormError The standard error associated with the CH1 dye normalized signal
CH2_DyeNormError The standard error associated with the CH2 dye normalized signal
DyeNormCorrelation Dye normalized CH1 and CH2 pixel correlation
UNF_VALUE Expression level (mRNA abundance) relative to the common universal human reference RNA. Log2(CH1_ProcessedSignal/CH2_Processed signal)

Data table
ID_REF FLAG VALUE Log2_NormalTestisCenteredRatio RATIO PositionX PositionY CH1_SurrogateUsed CH2_SurrogateUsed CH1_ProcessedSignal CH2_ProcessedSignal CH1_ProcessedSigError CH2_ProcessedSigError CH1_AREA CH2_AREA CH1_MEAN CH2_MEAN CH1_MEDIAN CH2_MEDIAN CH1_SD CH2_SD CH1_BKD_AREA CH2_BKD_AREA CH1_BKD_MEAN CH2_BKD_MEAN CH1_BKD_MEDIAN CH2_BKD_MEDIAN CH1_BKD_SD CH2_BKD_SD CH1_NumSatPix CH2_NumSatPix CH1_IsSaturated CH2_IsSaturated CH1_IsFeatNonUnifOL CH2_IsFeatNonUnifOL CH1_IsBGNonUnifOL CH2_IsBGNonUnifOL CH1_IsFeatPopnOL CH2_IsFeatPopnOL CH1_BGSubSignal CH2_BGSubSignal CH1_BGSubSigError CH2_BGSubSigError CH1_IsWellAboveBG CH2_IsWellAboveBG IsNormalization CH1_DyeNormSignal CH2_DyeNormSignal CH1_DyeNormError CH2_DyeNormError DyeNormCorrelation UNF_VALUE
1 0 2.554197032 0 5.873404633 24.9412 21.4791 0 0 5316.6 905.199 65.5898 38.0374 58 58 535.155 299.517 525.5 288 40.9055 73.3282 272 272 45.9154 65.6912 46 66 4.29668 7.83456 0 0 0 0 0 0 0 0 0 0 435.888 229.413 5.37746 9.64018 1 1 0 5316.6 905.199 65.5898 38.0374 0.331677 2.554197032
2 0 2.766795583 0 6.805945428 46.0551 19.7608 0 0 234.213 34.413 14.0143 4.71585 61 61 118.016 80 118 80 8.48035 8.77116 262 262 46 66.6145 46 66 4.23179 8.10422 0 0 0 0 0 0 0 0 0 0 18.665 8.97266 1.11683 1.22959 1 0 0 234.213 34.413 14.0143 4.71585 0.128564 2.766795583
3 0 0.541424574 0.033382754 1.455408937 66.9259 21.6602 0 0 536.912 368.908 22.0766 15.2507 59 59 142.085 168.661 144 166 13.3252 30.4459 267 267 46.1236 67.6592 46 67 4.00419 7.88688 0 0 0 0 0 0 0 0 0 0 42.6098 96.589 1.75202 3.993 1 1 1 536.912 368.908 22.0766 15.2507 0.592396 0.541424574
4 0 0.826475358 0 1.773347608 88.0975 20.0329 0 0 150731 84998 2746.2 2525.38 62 62 8426.82 32039.8 8364.5 31605.5 1194.7 7478.42 271 271 45.6605 68.8856 45 68 3.91236 8.30115 0 0 0 0 0 0 0 0 0 0 8327.81 31966.5 151.727 949.76 1 1 0 150731 84998 2746.2 2525.38 0.976436 0.826475358
5 0 0.210454841 -0.068772615 1.157052913 109.193 21.8074 0 0 2910.96 2515.84 67.1109 78.793 62 62 333.823 720.79 342 716.5 42.5327 159.953 278 278 45.9245 67.5863 45 68 4.1425 7.71735 0 0 0 0 0 0 0 0 0 0 234.547 648.791 5.40737 20.3194 1 1 0 2910.96 2515.84 67.1109 78.793 0.758656 0.210454841
7 0 3.039389565 0 8.221431213 151.807 22.6145 0 0 4312.19 524.506 70.4077 18.4452 57 57 470.877 196.947 465 192 45.7341 33.4266 256 256 46.1836 65.9766 46 66 4.12851 7.2593 0 0 0 0 0 0 0 0 0 0 371.342 126.558 6.06313 4.45065 1 1 0 4312.19 524.506 70.4077 18.4452 0.436412 3.039389565
8 0 -0.34800944 0 0.785667376 172.919 21.5564 0 0 3098.46 3943.73 52.7633 119.274 57 57 344.965 1110.65 345 1128 31.3699 237.008 273 273 47.0293 68.1319 47 68 4.75416 8.0557 0 0 0 0 0 0 0 0 0 0 244.584 1038.1 4.16499 31.3963 1 1 0 3098.46 3943.73 52.7633 119.274 0.667434 -0.34800944
9 0 0.058019549 -0.308138423 1.041035704 194.1 22.2105 0 0 2419.19 2323.83 52.0148 70.6825 63 63 296.397 665.19 290 663 33.5225 143.28 275 275 46.2945 67.0691 46 67 4.00052 8.29952 0 0 0 0 0 0 0 0 0 0 196.751 593.709 4.23032 18.0585 1 1 0 2419.19 2323.83 52.0148 70.6825 0.765597 0.058019549
11 0 0.513016345 -0.015546059 1.427030674 236.723 22.9722 0 0 1671.11 1171.04 40.0744 44.3792 62 62 245.984 355.161 246 356 27.1224 84.0868 258 258 48.5388 68.5543 48 68 4.40998 9.19857 0 0 0 0 0 0 0 0 0 0 144.094 282.194 3.45547 10.6944 1 1 0 1671.11 1171.04 40.0744 44.3792 0.642568 0.513016345
13 0 -0.31295098 -0.154305854 0.804993489 278.987 21.2467 0 0 1675.28 2081.11 48.7251 62.002 63 63 243.524 590.063 248 581 32.3319 122.009 276 276 49.8478 69.3949 50 69 4.21064 8.72988 0 0 0 0 0 0 0 0 0 0 140.325 516.256 4.08131 15.3806 1 1 0 1675.28 2081.11 48.7251 62.002 0.727459 -0.31295098
14 0 2.987639328 -0.10821176 7.931750672 299.942 22.1304 0 0 4403.24 555.141 63.0493 19.8848 62 62 480.113 208.065 473 207.5 42.5646 37.6606 264 264 48.8106 69.2652 49 68 4.18059 8.82389 0 0 0 0 0 0 0 0 0 0 377.951 134.387 5.41182 4.81364 1 1 0 4403.24 555.141 63.0493 19.8848 0.355131 2.987639328
15 0 0.41280984 0.265187721 1.331276128 320.956 21.9458 0 0 8738.39 6563.92 166.628 209.096 61 61 748.721 1914.74 744 1850 96.3798 458.074 264 264 48.072 69.1023 48 68 4.29768 8.92475 0 0 0 0 0 0 0 0 0 0 647.298 1841.22 12.343 58.6529 1 1 0 8738.39 6563.92 166.628 209.096 0.877981 0.41280984
16 0 -0.297301153 -0.347696051 0.813773298 342.103 21.0293 0 0 1266.63 1556.49 39.3507 43.6549 62 62 210.016 447.081 210.5 459.5 26.6375 82.7299 274 274 47.4416 67.6095 48 67 4.37172 8.49547 0 0 0 0 0 0 0 0 0 0 109.223 375.058 3.39326 10.5192 1 1 0 1266.63 1556.49 39.3507 43.6549 0.645898 -0.297301153
17 0 1.73720594 0.418660254 3.333888696 363.652 23.1159 0 0 4222.17 1266.44 99.3072 47.6484 58 58 444.362 394.897 440.5 398.5 61.6193 92.4436 283 283 46.8516 67.6502 47 68 4.14616 7.30548 0 0 0 0 0 0 0 0 0 0 344.159 322.834 8.09476 12.1462 1 1 0 4222.17 1266.44 99.3072 47.6484 0.786196 1.73720594
21 0 3.220896752 0 9.323662302 448.231 24.0619 0 0 4653.3 499.085 54.2903 21.1411 63 63 500.762 192.397 497 197 37.0177 40.3543 274 274 47.0985 67.438 47 67 4.12814 7.86177 0 0 0 0 0 0 0 0 0 0 400.312 120.546 4.67046 5.1063 1 1 0 4653.3 499.085 54.2903 21.1411 0.432382 3.220896752
23 0 -1.243114696 -0.085760319 0.422459605 490.209 24.3273 0 0 2587.62 6125.13 71.5418 215.367 60 60 302.367 1699.15 294 1628.5 43.2897 443.299 267 267 46.6854 67.0487 46 68 3.9734 7.50448 0 0 0 0 0 0 0 0 0 0 202.33 1627.69 5.59397 57.2315 1 1 0 2587.62 6125.13 71.5418 215.367 0.889563 -1.243114696
25 0 -0.44467491 -0.401282102 0.734749863 532.967 24.9674 0 0 2619.42 3565.05 55.6605 131.769 60 60 309.167 997.817 306 986 34.3778 265.591 260 260 46.6654 65.6577 46 65 3.75396 7.36488 0 0 0 0 0 0 0 0 0 0 209.15 927.746 4.44426 34.2907 1 1 0 2619.42 3565.05 55.6605 131.769 0.695076 -0.44467491
26 0 -1.842578496 -0.042195879 0.278823005 554.064 23.7784 0 0 481.558 1727.11 23.2239 58.0097 60 60 140.95 504.167 138 498 14.7802 112.541 269 269 47.6729 66.9108 48 67 4.23173 8.53305 0 0 0 0 0 0 0 0 0 0 39.9257 432.843 1.92548 14.5382 1 1 0 481.558 1727.11 23.2239 58.0097 0.603917 -1.842578496
28 0 3.243326302 -0.639254256 9.469749752 596.262 24.1353 0 0 4770.68 503.781 61.5851 20.5376 61 61 510.41 192.77 500 196 41.2728 38.5981 274 274 47.1971 66.5146 47 66 4.33799 8.27115 0 0 0 0 0 0 0 0 0 0 409.861 121.843 5.29094 4.96718 1 1 0 4770.68 503.781 61.5851 20.5376 0.307228 3.243326302
29 0 2.696534375 0 6.482428439 617.442 24.9196 0 0 5170.91 797.681 120.915 31.2104 60 60 529.033 271 524.5 271 77.5408 60.5744 266 266 47.4662 66.4398 48 66 3.8599 6.74258 0 0 0 0 0 0 0 0 0 0 428.216 200.147 10.0133 7.83104 1 1 0 5170.91 797.681 120.915 31.2104 0.68664 2.696534375

Total number of rows: 19061

Table truncated, full table size 5483 Kbytes.




Supplementary file Size Download File type/resource
GSM31803.tif.gz 21.7 Mb (ftp)(http) TIFF

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