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Sample GSM43 Query DataSets for GSM43
Status Public on Jan 24, 2001
Title NHGRI_UACC-502
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: cervical lymph node
Patient sex: male
Patient age: 69
Passage number: 3
p16 mutation status: deleted
Invasive ability: 2.8 +/- 0.1%
Vasculogenic mimicry: -
Gel contraction: ND
Cell motility: ND
Scratch wound (%): 37

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 68 264 86 282 9225959 53867.6 16738.1 173 2047.3 694.6 68 264 86 282 7794963 45369.8 21187.6 165 1872.4 508.7 173 1.187 0.0178683 99.000 0.563 2.305 1.139 0.176 1.042
2 683 272 701 290 643885 2993.1 1221.3 147 1509.6 271.6 683 272 701 290 666256 3075.4 1248.2 132 1583.7 233.5 151 0.973 -0.0685423 99.000 0.563 2.305 1.139 0.176 0.854
3 104 264 122 282 610574 6016.5 4045.0 87 1615.7 342.4 104 264 122 282 438966 4021.9 3230.4 62 1465.2 203.3 88 1.496 0.1182653 99.000 0.563 2.305 1.139 0.176 1.313
4 719 272 737 290 960325 4477.7 1240.7 154 1678.2 366.4 719 272 737 290 1235553 6162.8 1698.1 156 1757.4 312.7 164 0.727 -0.1951793 99.000 0.563 2.305 1.139 0.176 0.638
5 141 264 159 282 1875472 12007.5 6651.2 147 1485.1 266.4 141 264 159 282 1164239 6972.0 4619.2 120 1403.8 205.9 147 1.722 0.1795523 99.000 0.563 2.305 1.139 0.176 1.512
6 756 271 774 289 10441620 58018.5 12409.4 180 2688.6 982.8 756 271 774 289 9983787 55369.5 14949.1 172 2675.8 957.6 180 1.048 -0.0362123 99.000 0.563 2.305 1.139 0.176 0.920
7 177 264 195 282 2808071 17001.4 7552.0 159 1595.1 359.0 177 264 195 282 1882518 10901.5 5546.8 147 1565.5 262.3 159 1.560 0.1364033 99.000 0.563 2.305 1.139 0.176 1.369
8 792 271 810 289 9406174 51188.2 13833.4 182 2870.2 1059.1 792 271 810 289 8240953 44734.7 16965.4 181 2627.1 839.2 182 1.144 0.0021663 99.000 0.563 2.305 1.139 0.176 1.005
9 214 264 232 282 1849277 13437.5 6283.1 131 1597.2 388.0 214 264 232 282 1104526 7297.8 3633.9 116 1682.1 340.6 131 1.841 0.2087103 99.000 0.563 2.305 1.139 0.176 1.617
10 828 271 846 289 2419184 13217.5 5129.7 167 1902.4 387.4 828 271 846 289 1709274 8736.3 4163.0 154 1946.7 358.7 168 1.513 0.1231983 99.000 0.563 2.305 1.139 0.176 1.328
11 250 264 268 282 3340468 20129.3 11063.0 160 1703.8 423.8 250 264 268 282 3426660 20523.9 12708.0 152 1872.6 395.5 161 0.981 -0.0649973 99.000 0.563 2.305 1.139 0.176 0.861
12 865 271 883 289 789227 15157.6 13301.0 54 1999.5 410.8 865 271 883 289 462003 8141.1 8888.4 39 1902.4 316.4 54 1.862 0.2135183 99.000 0.563 2.305 1.139 0.176 1.635
13 73 882 91 900 2523271 18205.2 8222.8 137 1355.1 266.0 73 882 91 900 1454394 9926.9 4550.6 123 1347.4 200.3 137 1.834 0.2068263 99.000 0.563 2.305 1.139 0.176 1.610
14 676 881 694 899 4790965 37864.7 18014.5 129 1730.1 431.7 676 881 694 899 3007036 23163.4 11720.1 128 1688.2 301.1 129 1.635 0.1568523 99.000 0.563 2.305 1.139 0.176 1.435
15 110 882 128 900 5755795 39499.6 19590.4 148 1613.2 396.0 110 882 128 900 4567878 31050.3 15885.3 141 1577.4 313.6 148 1.272 0.0480533 99.000 0.563 2.305 1.139 0.176 1.117
16 712 881 730 899 1641223 14229.2 5863.8 111 1705.0 331.7 712 881 730 899 1158154 9520.6 4260.4 103 1723.6 267.6 111 1.495 0.1179343 99.000 0.563 2.305 1.139 0.176 1.312
17 146 882 164 900 2160335 16146.2 7417.4 130 1561.5 335.2 146 882 164 900 1447354 10233.6 5501.4 120 1629.9 300.0 130 1.578 0.1414503 99.000 0.563 2.305 1.139 0.176 1.385
18 748 880 766 898 1568158 16332.8 9223.8 90 1692.0 348.7 748 880 766 898 1434645 14776.0 8136.9 95 1714.1 241.2 95 1.105 -0.0132283 99.000 0.563 2.305 1.139 0.176 0.970
19 183 882 201 900 2369609 17868.2 6600.3 128 1715.4 426.2 183 882 201 900 2252147 16752.0 7032.1 124 1860.8 420.3 129 1.067 -0.0287243 99.000 0.563 2.305 1.139 0.176 0.936
20 785 880 803 898 1609164 14917.6 7312.7 105 1671.7 265.8 785 880 803 898 1727103 15935.7 8132.5 103 1869.5 293.4 105 0.936 -0.0851283 99.000 0.563 2.305 1.139 0.176 0.822

Total number of rows: 8192

Table truncated, full table size 1376 Kbytes.




Supplementary data files not provided
Processed data included within Sample table

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