NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM40102 Query DataSets for GSM40102
Status Public on Nov 30, 2005
Title M9 Cy3
Sample type genomic
 
Channel 1
Source name Pooled reference DNA from either 4 healthy males or females of the opposite sex compared to the sample.
Organism Homo sapiens
Extracted molecule genomic DNA
 
Channel 2
Source name Isolated tumor DNA, derived from cerebellar medulloblastoma.
Organism Homo sapiens
Extracted molecule genomic DNA
 
 
Description Comparison of normal versus tumor DNA (medulloblastoma). Whole-genome screening of DNA-copy number changes by array-based or matrix comparative genomic hybridization (matrix-CGH). Every experiment was performed as dye-swap.
 
Submission date Jan 28, 2005
Last update date Oct 06, 2005
Contact name Frank Mendrzyk
E-mail(s) f.mendrzyk@dkfz.de
Phone 49-6221-424676
Organization name German Cancer Research Center (DKFZ)
Street address
City Heidelberg
ZIP/Postal code 69120
Country Germany
 
Platform ID GPL1432
Series (1)
GSE2139 human medulloblastoma

Data table header descriptions
ID_REF
Block In which block a single spot is localized. The block count starts from the left top to the right hand side and ends at the right bottom of the slide.
Column In which column a single spot is localized. The count starts from the left top downwards and ends at the right bottom of a single block (Y-direction).
Row In which row a single spot is localized. The count starts from the left top to the right hand side and ends at the right bottom of a single block (X-direction).
VALUE Raw log ratio (Cy5/Cy3).
CH1_RAW Raw median signal intensity in Cy5-channel (635nm).
CH1_MEAN Raw mean signal intensity in Cy5-channel (635nm).
CH1_SD Signal intensity standard deviation in Cy5-channel (635nm).
CH1_BKD_RAW Raw median background intensity in Cy5-channel (635nm).
CH1_BKD_MEAN Raw mean background intensity in Cy5-channel (635nm).
CH1_BKD_SD Background intensity standard deviation in Cy5-channel (635nm).
CH1_AREA Signal area in Cy5-channel (635nm).
CH1_BKD_AREA Background area in Cy5-channel (635nm).
CH2_RAW Raw median signal intensity in Cy3-channel (532nm).
CH2_MEAN Raw mean signal intensity in Cy3-channel (532nm).
CH2_SD Signal intensity standard deviation in Cy3-channel (532nm).
CH2_BKD_RAW Raw median background intensity in Cy3-channel (532nm).
CH2_BKD_MEAN Raw mean background intensity in Cy3-channel (532nm).
CH2_BKD_SD Background intensity standard deviation in Cy3-channel (532nm).
CH2_AREA Signal area in Cy3-channel (532nm).
CH2_BKD_AREA Background area in Cy3-channel (532nm).

Data table
ID_REF Block Column Row VALUE CH1_RAW CH1_MEAN CH1_SD CH1_BKD_RAW CH1_BKD_MEAN CH1_BKD_SD CH1_AREA CH1_BKD_AREA CH2_RAW CH2_MEAN CH2_SD CH2_BKD_RAW CH2_BKD_MEAN CH2_BKD_SD CH2_AREA CH2_BKD_AREA
G000001-1 29 1 1 -0.124 5696 5598 867 125 127 44 52 384 6239 5987 1121 166 171 47 52 384
G000001-2 29 2 1 -0.153 6105 5871 829 118 125 44 52 362 6814 6501 1115 159 163 42 52 362
G000001-3 29 3 1 -0.174 5689 5651 612 120 126 45 52 370 6437 6314 679 154 156 41 52 370
G000002-1 21 1 1 -0.17 13612 12662 2834 121 128 47 52 385 15335 14045 3396 162 164 45 52 385
G000002-2 21 2 1 -0.159 13048 10483 4430 126 130 50 80 440 14582 11796 5174 159 162 42 80 440
G000002-3 21 3 1 -0.148 14318 13826 1768 119 123 43 52 350 15879 15090 2606 150 151 41 52 350
G000003-1 13 1 1 -0.187 8935 8205 1955 137 143 52 52 312 10185 9643 1924 166 172 57 52 312
G000003-2 13 2 1 -0.167 9296 8616 1838 125 129 48 52 362 10447 9720 2289 149 153 38 52 362
G000003-3 13 3 1 -0.234 8583 8224 2053 122 129 47 52 361 10101 9481 2469 150 155 43 52 361
G000004-1 5 1 1 -0.133 11562 10929 2182 119 125 45 52 385 12718 11964 2328 171 174 47 52 385
G000004-2 5 2 1 -0.151 11600 10705 2688 125 128 48 52 362 12918 11945 3000 175 179 54 52 362
G000004-3 5 3 1 -0.128 11933 11241 2184 115 123 42 52 378 13098 12364 2236 181 183 45 52 378
G000005-1 29 4 1 -0.122 25135 23600 4495 127 131 45 52 362 27368 25298 5798 158 162 45 52 362
G000005-2 29 5 1 -0.092 22292 18796 8336 120 125 42 80 452 23792 19853 8934 157 160 40 80 452
G000005-3 29 6 1 -0.067 24445 23423 3536 121 128 46 52 370 25636 24931 3243 153 157 41 52 370
G000006-1 21 4 1 -0.118 16301 14958 3732 113 118 44 52 379 17721 16703 3728 150 152 40 52 379
G000006-2 21 5 1 -0.092 14845 14204 2887 120 124 42 52 362 15839 15179 3059 145 150 47 52 362
G000006-3 21 6 1 -0.126 16276 14953 3603 110 116 40 52 370 17784 16326 4461 138 144 44 52 370
G000007-1 13 4 1 -0.233 10568 9707 2352 123 129 44 52 314 12427 11517 2299 154 157 41 52 314
G000007-2 13 5 1 -0.059 10305 9493 2651 125 131 55 52 314 10756 9859 2316 153 165 103 52 314

Total number of rows: 19311

Table truncated, full table size 1718 Kbytes.




Supplementary data files not provided

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap