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Sample GSM14 Query DataSets for GSM14
Status Public on Jan 24, 2001
Title NHGRI_M91-054
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 metastasis
Patient sex: male
Patient age: 45
Passage number: 3
p16 mutation status: WT
Invasive ability: ND
Vasculogenic mimicry: + #
Gel contraction: + #
Cell motility: ND
Scratch wound (%): 30% #

# Mixed epithelioid and fibroblastic phenotypes.
Vasculogenic mimicry and gel contraction only in epithelioid phenotype.
Scratch assay results same for both phenotypes.

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 29, 2014
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 RMA Normalized Signal
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 66 256 84 274 3269402 26461.5 14025.5 109 3260.4 486.4 66 256 84 274 5221181 45584.3 20179.7 118 1881.0 465.9 118 0.580 -0.1354893 99.000 0.354 1.774 0.793 0.196 0.732
2 681 264 699 282 806092 1655.9 831.7 89 3718.0 437.4 681 264 699 282 1271213 6490.5 1814.7 158 1984.3 293.4 158 0.255 -0.4921443 99.000 0.354 1.774 0.793 0.196 0.322
3 102 256 120 274 454652 4218.7 2332.1 68 3114.4 322.5 102 256 120 274 463926 5828.0 3221.6 63 1654.7 266.5 70 0.724 -0.0395293 99.000 0.354 1.774 0.793 0.196 0.913
4 717 264 735 282 1734517 4997.0 1946.8 147 3943.8 520.5 717 264 735 282 2873212 12428.7 4078.6 201 2381.7 505.4 202 0.402 -0.2949923 99.000 0.354 1.774 0.793 0.196 0.507
5 139 256 157 274 875669 7952.3 3228.8 80 3132.1 321.3 139 256 157 274 887091 9538.5 4501.6 83 1690.5 228.3 87 0.834 0.0220163 99.000 0.354 1.774 0.793 0.196 1.052
6 754 263 772 281 12852420 55232.7 9333.6 210 5969.3 2415.6 754 263 772 281 13180930 58488.3 7244.1 217 4278.0 2230.9 218 0.944 0.0759123 99.000 0.354 1.774 0.793 0.196 1.191
7 175 256 193 274 1566167 11579.3 5470.0 103 3336.6 427.3 175 256 193 274 1698311 14283.6 6737.1 113 1890.8 294.6 113 0.811 0.0094513 99.000 0.354 1.774 0.793 0.196 1.022
8 790 263 808 281 8134459 35013.4 10732.5 203 4861.4 1084.1 790 263 808 281 11417710 52329.3 11925.9 212 3639.9 1273.3 212 0.669 -0.0736583 99.000 0.354 1.774 0.793 0.196 0.844
9 212 256 230 274 1603590 13248.7 5012.7 97 3455.4 509.0 212 256 230 274 1100478 9576.4 3719.9 99 1886.9 288.3 104 1.383 0.2417953 99.000 0.354 1.774 0.793 0.196 1.745
10 826 262 844 280 1841873 8886.1 4630.5 121 4270.1 810.1 826 262 844 280 1931372 11352.1 4288.8 144 2443.4 515.0 148 0.783 -0.0056833 99.000 0.354 1.774 0.793 0.196 0.987
11 248 256 266 274 2543417 16767.0 7089.2 121 3580.3 472.5 248 256 266 274 3459446 25352.8 11151.7 133 2322.7 489.6 133 0.661 -0.0788343 99.000 0.354 1.774 0.793 0.196 0.834
12 863 262 881 280 547384 11971.8 8581.9 40 4127.7 560.0 863 262 881 280 515265 12711.9 10239.0 36 2442.9 389.9 42 0.942 0.0748163 99.000 0.354 1.774 0.793 0.196 1.188
13 75 877 93 895 1090953 7479.4 2327.8 98 3216.3 364.3 75 877 93 895 1097951 9235.0 2629.9 110 1529.2 237.5 110 0.810 0.0094513 99.000 0.354 1.774 0.793 0.196 1.022
14 677 872 695 890 3187266 22898.7 8451.5 118 4112.1 563.0 677 872 695 890 3889039 30774.7 11150.8 126 2183.3 415.7 126 0.744 -0.0273343 99.000 0.354 1.774 0.793 0.196 0.939
15 112 877 130 895 4871034 39944.6 16818.3 120 3546.8 527.7 112 877 130 895 3266688 27396.4 10801.7 117 1770.5 350.5 120 1.458 0.2645823 99.000 0.354 1.774 0.793 0.196 1.839
16 713 872 731 890 1152653 6757.7 2755.0 104 3817.1 363.7 713 872 731 890 1486041 11487.4 4191.1 116 2146.0 319.4 117 0.588 -0.1295963 99.000 0.354 1.774 0.793 0.196 0.742
17 148 877 166 895 1766035 12558.8 4019.1 104 3496.1 417.3 148 877 166 895 1915729 15553.8 4571.2 118 1861.9 335.0 118 0.807 0.0077483 99.000 0.354 1.774 0.793 0.196 1.018
18 749 871 767 889 1155547 8454.3 6272.2 80 3838.7 433.0 749 871 767 889 1720830 16205.3 8793.4 102 2101.5 340.3 102 0.522 -0.1817743 99.000 0.354 1.774 0.793 0.196 0.658
19 185 877 203 895 2147102 15497.9 4546.4 114 3845.4 452.3 185 877 203 895 2275111 17940.3 5417.6 119 2556.2 644.3 119 0.864 0.0374263 99.000 0.354 1.774 0.793 0.196 1.090
20 786 871 804 889 1756237 12207.8 5945.7 103 4205.6 492.8 786 871 804 889 2202717 18309.0 9175.7 114 2277.2 382.1 115 0.667 -0.0752043 99.000 0.354 1.774 0.793 0.196 0.841

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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