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Sample GSM17 Query DataSets for GSM17
Status Public on Jan 24, 2001
Title NHGRI_M93-047
Sample type RNA
 
Channel 1
Source name melanoma, lymph node
Organism Homo sapiens
Extracted molecule total RNA
 
Channel 2
Source name NHGRI_Melanoma_Ref
Organism Homo sapiens
Extracted molecule total RNA
 
 
Description Biopsy location: axillary lymph node
Patient sex: female
Patient age: 75
Passage number: 3
p16 mutation status: mutation
Invasive ability: 10.7 +/- 0.03%
Vasculogenic mimicry: +
Gel contraction: +
Cell motility: ND
Scratch wound (%): 75

See http://www.nhgri.nih.gov/DIR/Microarray/Nature_paper.pdf
and http://www.nhgri.nih.gov/DIR/Microarray/Melanoma_Supplement/index.html
 
Submission date Jan 08, 2001
Last update date May 27, 2005
Contact name Michael Bittner
E-mail(s) mbittner@nhgri.nih.gov
Phone 301-496-7980
Fax 301-402-3241
URL http://www.nhgri.nih.gov/Intramural_research/People/bittnerm.html
Organization name NHGRI, NIH
Department Cancer Genetics Branch
Street address
City Bethesda
State/province MD
ZIP/Postal code 20892
Country USA
 
Platform ID GPL7
Series (1)
GSE1 NHGRI_Melanoma_class

Data table header descriptions
ID_REF
CH1_TARGET_TOP Sample 1 (Red Channel) target location in image - top
CH1_TARGET_LT Sample 1 (Red Channel) target location in image - left
CH1_TARGET_BOT Sample 1 (Red Channel) target location in image - bottom
CH1_TARGET_RT Sample 1 (Red Channel) target location in image - right
CH1_RAW Sample 1 (Red Channel) Total Intensity
CH1_MEAN Sample 1 (Red Channel) Mean Intensity
CH1_SD Sample 1 (Red Channel) Standard Deviation
CH1_AREA Sample 1 (Red Channel) Area
CH1_BKD_MEAN Sample 1 (Red Channel) Mean Background Level
CH1_BKD_SD Sample 1 (Red Channel) Background Standard Deviation
CH2_TARGET_TOP Sample 2 (Green Channel) target location in image - top
CH2_TARGET_LT Sample 2 Green Channel) target location in image - left
CH2_TARGET_BOT Sample 2 Green Channel) target location in image - bottom
CH2_TARGET_RT Sample 2 Green Channel) target location in image - right
CH2_RAW Sample 2 Green Channel) Total Intensity
CH1_MEAN Sample 1 (Red Channel) Mean Intensity
CH2_SD Sample 2 Green Channel) Standard Deviation
CH2_AREA Sample 2 Green Channel) Area
CH2_BKD_MEAN Sample 2 Green Channel) Mean Background Level
CH2_BKD_SD Sample 2 Green Channel) Background Standard Deviation
UNION_AREA Union Area
RATIO Raw Ratio
VALUE log ratio of PRE_VALUE
CONF_LEVEL Confidence Level - fixed at 99%
CONF_LOW Confidence Interval - Lower Bound - Raw Ratio
CONF_UP Confidence Interval - Upper Bound - Raw Ratio
NORM_FACTOR M-value
CV Coefficient of variance
PRE_VALUE Calibrated Ratio

Data table
ID_REF CH1_TARGET_TOP CH1_TARGET_LT CH1_TARGET_BOT CH1_TARGET_RT CH1_RAW CH1_MEAN CH1_SD CH1_AREA CH1_BKD_MEAN CH1_BKD_SD CH2_TARGET_TOP CH2_TARGET_LT CH2_TARGET_BOT CH2_TARGET_RT CH2_RAW CH1_MEAN CH2_SD CH2_AREA CH2_BKD_MEAN CH2_BKD_SD UNION_AREA RATIO VALUE CONF_LEVEL CONF_LOW CONF_UP NORM_FACTOR CV PRE_VALUE
1 57 263 75 281 1921829 12320.3 4857.7 131 2463.0 374.2 57 263 75 281 1694764 11253.0 4703.7 136 1783.7 226.8 138 1.095 0.0157793 99.000 0.509 2.190 1.055 0.181 1.037
2 673 273 691 291 873326 4747.5 1616.7 124 2075.4 312.0 673 273 691 291 473626 1933.7 786.1 119 1766.5 219.9 136 2.455 0.3666103 99.000 0.509 2.190 1.055 0.181 2.326
3 93 263 111 281 182872 2735.8 1224.6 35 2489.1 354.5 93 263 111 281 121923 1760.5 939.5 40 1723.0 188.8 43 1.554 0.1679083 99.000 0.509 2.190 1.055 0.181 1.472
4 709 273 727 291 669437 2603.8 766.6 140 2318.6 398.9 709 273 727 291 670638 3018.0 1033.0 111 1913.1 321.5 144 0.863 -0.0877783 99.000 0.509 2.190 1.055 0.181 0.817
5 130 263 148 281 511943 2763.1 1131.7 105 2305.7 305.5 130 263 148 281 349119 1804.0 877.3 98 1652.6 175.6 109 1.532 0.1616673 99.000 0.509 2.190 1.055 0.181 1.451
6 746 273 764 291 6232573 31373.2 9049.8 179 3252.2 1179.8 746 273 764 291 5838370 29814.5 8876.7 188 2620.9 859.2 188 1.052 -0.0013053 99.000 0.509 2.190 1.055 0.181 0.997
7 166 263 184 281 1012083 6208.8 2108.8 122 2368.2 304.5 166 263 184 281 562745 3087.5 1383.0 115 1681.5 172.8 126 2.011 0.2798953 99.000 0.509 2.190 1.055 0.181 1.905
8 782 273 800 291 7433485 39529.7 12922.7 174 3688.2 1527.9 782 273 800 291 5761725 30558.3 11555.5 178 2940.1 936.6 180 1.294 0.0884903 99.000 0.509 2.190 1.055 0.181 1.226
9 203 263 221 281 729036 4900.1 2093.5 101 2463.9 338.3 203 263 221 281 415949 2506.1 1193.0 101 1695.4 177.4 107 1.955 0.2678753 99.000 0.509 2.190 1.055 0.181 1.853
10 819 273 837 291 1392899 10258.6 5273.4 95 2520.3 484.2 819 273 837 291 1286452 9598.3 5037.5 111 2204.0 375.4 117 1.069 0.0056093 99.000 0.509 2.190 1.055 0.181 1.013
11 239 263 257 281 1785195 10620.3 4761.1 138 2702.0 390.6 239 263 257 281 1286119 7623.6 3544.6 134 1974.3 241.2 142 1.393 0.1205743 99.000 0.509 2.190 1.055 0.181 1.320
12 855 274 873 292 424960 7833.5 5151.5 43 2531.4 519.8 855 274 873 292 355653 6613.9 4921.4 47 2060.6 295.9 49 1.184 0.0499933 99.000 0.509 2.190 1.055 0.181 1.122
13 60 883 78 901 1327443 11121.9 3112.3 103 2563.1 354.5 60 883 78 901 1234492 10447.3 3512.2 103 2279.4 255.2 105 1.065 0.0038913 99.000 0.509 2.190 1.055 0.181 1.009
14 665 879 683 897 4192194 34380.7 17658.4 115 2718.4 536.6 665 879 683 897 4797244 39892.4 19819.8 121 2561.1 418.6 121 0.862 -0.0877783 99.000 0.509 2.190 1.055 0.181 0.817
15 97 883 115 901 3487795 27502.1 11090.6 121 2565.1 404.1 97 883 115 901 3649571 29265.9 12180.8 124 2195.9 297.7 124 0.940 -0.0506103 99.000 0.509 2.190 1.055 0.181 0.890
16 701 879 719 897 1085849 11016.3 3706.2 84 2728.6 382.5 701 879 719 897 1250162 13380.4 4160.4 87 2444.5 238.7 87 0.823 -0.1079053 99.000 0.509 2.190 1.055 0.181 0.780
17 133 883 151 901 2811267 23611.6 9212.5 115 2661.9 415.7 133 883 151 901 2290716 19128.4 8340.6 110 2280.2 322.4 115 1.234 0.0681863 99.000 0.509 2.190 1.055 0.181 1.170
18 738 879 756 897 1459409 16191.3 7657.2 80 2762.1 432.7 738 879 756 897 1672199 19170.1 8350.8 84 2546.7 320.1 85 0.845 -0.0969103 99.000 0.509 2.190 1.055 0.181 0.800
19 170 883 188 901 1793389 15202.6 3791.7 105 2912.4 509.2 170 883 188 901 1959829 17119.6 4605.5 104 2676.7 559.9 107 0.888 -0.0752043 99.000 0.509 2.190 1.055 0.181 0.841
20 774 879 792 897 935274 9533.5 5356.3 81 2457.2 510.3 774 879 792 897 1078825 11352.4 6949.8 82 2478.7 329.3 86 0.840 -0.0990873 99.000 0.509 2.190 1.055 0.181 0.796

Total number of rows: 8192

Table truncated, full table size 1371 Kbytes.




Supplementary data files not provided
Processed data included within Sample table
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