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Sample GSM41 Query DataSets for GSM41
Status Public on Jan 24, 2001
Title NHGRI_UACC-383
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: femoral lymph node
Patient sex: male
Patient age: 69
Passage number: 29
p16 mutation status: deleted
Invasive ability: 2.3 +/- 0.2%
Vasculogenic mimicry: -
Gel contraction: ND
Cell motility: 70.40 +/- 5.27
Scratch wound (%): 35

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 42 134 60 152 7387858 41676.1 16789.9 174 2829.1 283.2 42 134 60 152 6493692 34864.6 16132.0 157 4254.0 332.3 174 1.195 0.0838613 99.000 0.450 2.159 0.986 0.192 1.213
2 645 138 663 156 561754 4592.3 2594.4 78 2518.5 235.9 645 138 663 156 851277 6654.5 4396.3 75 4121.2 309.5 87 0.690 -0.1549023 99.000 0.450 2.159 0.986 0.192 0.700
3 78 134 96 152 201673 1403.1 525.4 53 2712.7 244.1 78 134 96 152 289594 1718.5 1059.7 35 4191.6 320.4 57 0.816 -0.0819703 99.000 0.450 2.159 0.986 0.192 0.828
4 681 139 699 157 718945 5123.5 2035.6 99 2524.8 226.4 681 139 699 157 945739 5969.4 2570.6 92 4091.6 272.7 102 0.858 -0.0599823 99.000 0.450 2.159 0.986 0.192 0.871
5 115 134 133 152 2395995 13504.5 4383.3 152 2794.8 282.9 115 134 133 152 1711955 7513.6 2931.5 131 4132.3 299.4 155 1.797 0.2607873 99.000 0.450 2.159 0.986 0.192 1.823
6 718 139 736 157 7254494 54559.2 17284.6 132 2562.8 261.6 718 139 736 157 7206704 52539.7 17854.8 132 4206.0 332.6 135 1.038 0.0228413 99.000 0.450 2.159 0.986 0.192 1.054
7 151 133 169 151 2519317 13860.4 4331.2 157 2823.8 303.9 151 133 169 151 1427117 5273.2 2051.3 134 4177.9 317.7 159 2.628 0.4260233 99.000 0.450 2.159 0.986 0.192 2.667
8 754 140 772 158 3834888 27377.7 12054.0 129 2582.4 272.3 754 140 772 158 4395350 30155.5 15113.0 120 4183.2 297.7 136 0.908 -0.0357403 99.000 0.450 2.159 0.986 0.192 0.921
9 188 133 206 151 5643130 31217.6 10593.0 174 2777.2 305.4 188 133 206 151 2997864 13810.9 5289.6 146 4248.5 341.4 174 2.260 0.3604043 99.000 0.450 2.159 0.986 0.192 2.293
10 791 140 809 158 674046 4205.0 2443.3 97 2535.5 242.8 791 140 809 158 899637 4863.1 3324.1 94 4133.3 289.2 108 0.865 -0.0570003 99.000 0.450 2.159 0.986 0.192 0.877
11 224 133 242 151 2550497 15010.8 5213.0 146 2701.0 314.6 224 133 242 151 3900610 22866.3 8938.4 136 4221.3 329.4 152 0.656 -0.1765263 99.000 0.450 2.159 0.986 0.192 0.666
12 827 141 845 159 243249 2434.7 1431.3 47 2529.6 255.0 827 141 845 159 457438 5205.6 4058.4 53 4129.8 304.8 57 0.468 -0.3242223 99.000 0.450 2.159 0.986 0.192 0.474
13 36 746 54 764 1109421 8844.9 3199.4 103 2475.7 253.4 36 746 54 764 1508632 11058.8 5813.7 92 4335.4 344.7 106 0.800 -0.0909793 99.000 0.450 2.159 0.986 0.192 0.811
14 653 743 671 761 6619503 49152.3 19541.7 135 2562.6 261.2 653 743 671 761 5672710 39913.1 21593.5 115 4404.9 336.3 136 1.231 0.0965623 99.000 0.450 2.159 0.986 0.192 1.249
15 72 746 90 764 4022726 31658.7 14902.4 123 2432.2 248.7 72 746 90 764 5483087 42157.7 21192.7 116 4309.1 319.3 126 0.751 -0.1180453 99.000 0.450 2.159 0.986 0.192 0.762
16 689 743 707 761 5221849 25623.4 10508.4 192 2602.8 286.8 689 743 707 761 2771678 10541.3 4620.8 159 4440.8 348.8 193 2.431 0.3919933 99.000 0.450 2.159 0.986 0.192 2.466
17 109 746 127 764 1590942 16710.9 6348.0 87 2457.1 254.0 109 746 127 764 1491743 13600.6 6560.9 79 4372.2 337.2 91 1.229 0.0958663 99.000 0.450 2.159 0.986 0.192 1.247
18 726 743 744 761 1443486 7327.4 2678.0 136 2627.7 284.3 726 743 744 761 2515145 12918.3 5071.6 129 4427.5 341.6 153 0.567 -0.2403323 99.000 0.450 2.159 0.986 0.192 0.575
19 146 746 164 764 2057427 17437.5 7524.6 106 2537.5 272.4 146 746 164 764 1960684 14538.5 6902.8 99 4497.3 379.7 111 1.199 0.0852913 99.000 0.450 2.159 0.986 0.192 1.217
20 762 743 780 761 1500294 9789.1 3602.7 118 2610.0 265.8 762 743 780 761 1970569 11882.4 4839.0 108 4403.3 333.9 129 0.824 -0.0777943 99.000 0.450 2.159 0.986 0.192 0.836

Total number of rows: 8192

Table truncated, full table size 1346 Kbytes.




Supplementary data files not provided
Processed data included within Sample table
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