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Sample GSM40099 Query DataSets for GSM40099
Status Public on Nov 30, 2005
Title M5 Cy5
Sample type genomic
 
Channel 1
Source name Isolated tumor DNA, derived from cerebellar medulloblastoma.
Organism Homo sapiens
Extracted molecule genomic DNA
 
Channel 2
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
 
 
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 -0.022 8926 8666 992 251 260 70 52 393 9039 8809 1403 233 236 64 52 393
G000001-2 29 2 1 -0.091 8812 8474 1692 246 251 68 52 362 9347 9009 1537 225 233 69 52 362
G000001-3 29 3 1 -0.036 8838 8637 1261 248 252 70 52 370 9046 8688 1672 237 241 68 52 370
G000002-1 21 1 1 -0.052 17864 17291 2692 257 262 74 52 401 18488 17807 3331 238 244 77 52 401
G000002-2 21 2 1 -0.04 17508 16858 2627 247 254 71 52 380 17976 17180 3079 230 241 77 52 380
G000002-3 21 3 1 -0.069 16817 16931 3356 241 247 67 52 371 17620 17212 3916 233 236 62 52 371
G000003-1 13 1 1 -0.122 8876 8590 2040 266 275 68 52 321 9606 9443 2249 239 241 59 52 321
G000003-2 13 2 1 -0.103 9510 8857 2059 259 266 68 52 307 10170 9180 2825 231 238 60 52 307
G000003-3 13 3 1 -0.1 10226 10055 1831 250 254 65 52 308 10920 10708 2159 231 234 60 52 308
G000004-1 5 1 1 -0.125 12359 12103 1557 253 258 75 52 320 13434 13474 1645 233 268 455 52 320
G000004-2 5 2 1 -0.168 11995 11893 1443 246 255 73 52 314 13433 13098 2310 231 237 62 52 314
G000004-3 5 3 1 -0.233 12173 12444 1498 238 246 63 52 322 14244 14258 1883 220 224 56 52 322
G000005-1 29 4 1 -0.079 24828 23597 4254 249 259 70 52 370 26201 25081 4160 235 240 66 52 370
G000005-2 29 5 1 -0.037 23324 23378 3472 240 243 63 52 307 23911 23876 5081 233 240 70 52 307
G000005-3 29 6 1 -0.095 24214 22604 6225 245 250 67 52 322 25828 24663 6005 232 237 62 52 322
G000006-1 21 4 1 -0.097 19054 17619 4073 243 254 67 52 314 20345 18779 5327 229 233 63 52 314
G000006-2 21 5 1 -0.11 19027 18142 3441 252 259 69 52 315 20496 19126 4563 230 235 62 52 315
G000006-3 21 6 1 -0.118 18653 17481 4533 253 259 68 52 315 20198 19023 4817 234 239 61 52 315
G000007-1 13 4 1 -0.146 12046 12044 1151 235 243 69 32 236 13286 13146 1382 221 227 73 32 236
G000007-2 13 5 1 -0.101 10516 9788 3459 245 255 92 52 388 11255 10459 4192 241 303 1066 52 388

Total number of rows: 19311

Table truncated, full table size 1723 Kbytes.




Supplementary data files not provided

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