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Sample GSM40974 Query DataSets for GSM40974
Status Public on Nov 30, 2005
Title 2M20 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 Feb 03, 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 4 19 1 0.807 5460 5029 1982 374 406 303 52 340 3104 2997 1295 196 203 53 52 340
G000001-2 4 20 1 0.786 5716 5058 1944 374 425 355 52 340 3301 3112 1331 202 211 60 52 340
G000001-3 4 21 1 0.689 5314 5245 1787 376 385 96 52 340 3255 3255 1283 193 196 42 52 340
G000002-1 12 19 1 0.095 20805 19206 4977 368 386 118 52 420 19355 17603 5127 217 228 96 52 420
G000002-2 12 20 1 0.127 20318 19464 4429 362 374 111 52 420 18483 17522 4594 208 211 44 52 420
G000002-3 12 21 1 0.104 21029 20232 4507 378 413 290 52 420 19408 18356 4388 198 208 76 52 420
G000003-1 20 19 1 0.114 12015 11213 4188 372 386 134 52 420 10965 9744 3970 207 211 50 52 420
G000003-2 20 20 1 0.117 11925 11063 3890 349 356 84 52 340 10878 9632 3412 202 205 47 52 340
G000003-3 20 21 1 0.221 12612 11407 4191 359 373 93 52 340 10714 9725 3888 199 204 51 52 340
G000004-1 28 19 1 0.047 18749 16968 4576 342 362 156 52 420 18023 16527 3972 203 208 68 52 420
G000004-2 28 20 1 0.091 16672 14987 5021 326 345 156 52 420 15532 14177 4387 188 192 48 52 420
G000004-3 28 21 1 0.052 19136 18842 4820 317 333 217 52 420 18346 17923 4690 187 191 51 52 420
G000005-1 36 19 1 0.389 23506 21905 15776 398 654 981 80 548 17860 17363 12730 208 241 218 80 548
G000005-2 36 20 1 0.31 34754 32103 10105 392 877 1715 52 420 27914 25723 7922 205 255 217 52 420
G000005-3 36 21 1 0.33 38603 34084 11942 325 361 238 52 420 30634 27298 9517 191 199 59 52 420
G000006-1 44 19 1 0.023 16985 15977 3229 335 348 109 52 420 16581 15668 3774 195 200 45 52 420
G000006-2 44 20 1 -0.043 10245 10633 3009 336 351 107 52 420 10409 10411 2825 199 203 49 52 420
G000006-3 44 21 1 -0.048 17168 15780 5097 320 332 92 52 420 17609 15673 5416 191 194 57 52 420
G000007-1 4 16 1 0.254 14035 12209 4306 385 448 671 52 420 11653 10295 3481 204 220 189 52 420
G000007-2 4 17 1 0.203 13184 12194 3755 381 406 168 52 420 11320 9958 3372 197 204 53 52 420

Total number of rows: 19311

Table truncated, full table size 1761 Kbytes.




Supplementary data files not provided
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