NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM40096 Query DataSets for GSM40096
Status Public on Nov 30, 2005
Title M4 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 0.171 7816 7797 811 247 254 62 52 393 6896 6729 831 175 180 40 52 393
G000001-2 29 2 1 0.116 7713 7660 933 258 261 73 52 370 7054 6877 722 173 201 484 52 370
G000001-3 29 3 1 0.177 8111 7933 964 253 257 64 52 362 7123 7024 639 171 176 59 52 362
G000002-1 21 1 1 0.038 17155 14563 5529 271 274 66 80 476 16628 13741 5217 186 188 41 80 476
G000002-2 21 2 1 0.122 17869 17495 2289 275 280 66 52 353 16355 15898 2094 188 190 41 52 353
G000002-3 21 3 1 0.122 19045 17769 3464 270 276 69 52 380 17437 16253 3279 182 186 52 52 380
G000003-1 13 1 1 0.145 12808 12189 2473 293 294 69 52 401 11507 10997 2275 190 195 40 52 401
G000003-2 13 2 1 0.126 12148 11665 1837 276 281 65 52 363 11071 10369 1860 191 194 40 52 363
G000003-3 13 3 1 0.155 11772 11385 2283 264 269 62 52 371 10530 10146 2151 195 196 41 52 371
G000004-1 5 1 1 0.175 15945 14970 3088 253 258 62 52 392 14193 13531 2558 293 301 81 52 392
G000004-2 5 2 1 0.161 15996 15182 2562 252 256 65 52 363 14323 13444 2807 240 244 48 52 363
G000004-3 5 3 1 0.152 14851 14252 2498 255 253 60 52 379 13353 12911 2284 217 220 46 52 379
G000005-1 29 4 1 0.256 28330 26245 5025 256 263 70 52 362 23691 21413 5455 183 189 55 52 362
G000005-2 29 5 1 0.242 27292 26104 4155 251 261 71 52 370 23038 21307 4164 179 180 44 52 370
G000005-3 29 6 1 0.251 32307 32815 3318 249 254 64 52 378 27108 27563 3021 176 179 43 52 378
G000006-1 21 4 1 0.177 20568 19860 2903 271 276 67 52 371 18139 17371 2729 184 194 75 52 371
G000006-2 21 5 1 0.115 22725 22120 3866 270 268 65 52 362 20921 20512 2971 181 186 40 52 362
G000006-3 21 6 1 0.123 22590 21078 3908 263 265 66 52 362 20676 19196 4297 180 180 40 52 362
G000007-1 13 4 1 0.072 13504 12557 2780 271 273 64 52 363 12782 11818 2320 191 193 41 52 363
G000007-2 13 5 1 0.107 13990 13144 2464 275 275 65 52 306 12919 12202 2407 184 189 44 52 306

Total number of rows: 19311

Table truncated, full table size 1710 Kbytes.




Supplementary data files not provided
| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap