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Sample GSM475302 Query DataSets for GSM475302
Status Public on Dec 01, 2009
Title Bladder tumor REF15
Sample type genomic
 
Source name Bladder tumor
Organism Homo sapiens
Characteristics patient_id: P.REF15
sex: Male
stage: T4a
grade: G3
Biomaterial provider Henri Mondor Hospital
Extracted molecule genomic DNA
Extraction protocol Extraction of genomic DNA from fresh frozen tissue was performed using proteinase K and repeated phenol-chloroform extraction
Label C-Bio and A-DNP
Label protocol standard Illumina protocol
 
Hybridization protocol standard Illumina protocol
Scan protocol standard Illumina protocol
Description Genomic DNA extracted from bladder tumors was genotyped using HumanCNV370-Quadv3 Genotyping BeadChips (Illumina).
Data processing standard Illumina protocol
 
Submission date Nov 24, 2009
Last update date Nov 30, 2009
Contact name Eric Letouzé
E-mail(s) Eric.letouze@inserm.fr
Organization name Ligue Contre Le Cancer
Lab Centre de Recherche des Cordeliers
Street address 15 rue de l'école de médecine
City Paris
ZIP/Postal code 75006
Country France
 
Platform ID GPL6985
Series (2)
GSE19189 SNP data from 20 bladder tumors
GSE19195 Analysis of copy number profiles of several tumor samples of same patient reveals the successive steps in tumorigenesis

Data table header descriptions
ID_REF
VALUE Log R ratios as exported from the BeadStudio software
X Raw
X
Y Raw
Y
GType
Score
Theta
R
B Allele Freq

Data table
ID_REF VALUE X Raw X Y Raw Y GType Score Theta R B Allele Freq
cnvi0000001-126_T_R_1514230395 0.2573416 3041 0.4602285 86 0.006835645 NC 0 0.009454839 0.4670642 0
cnvi0000002-126_T_R_1514230396 0.2091714 562 0.05597745 10347 1.052396 NC 0 0.9661698 1.108373 0.9952196
cnvi0000003-126_T_F_1514230397 0.1192051 8594 1.323677 274 0.02185038 NC 0 0.01050794 1.345528 0.0009086386
cnvi0000004-126_T_F_1514265395 -0.1510395 303 0.01646261 9921 1.009256 NC 0 0.9896166 1.025718 0.9994357
cnvi0000005-126_T_R_1514265396 0.0756107 4977 0.7608014 405 0.03785133 NC 0 0.03164696 0.7986527 0
cnvi0000006-126_B_R_1514265397 -0.1633287 1787 0.2652368 46 0.003694664 NC 0 0.008867337 0.2689314 0
cnvi0000008-126_T_F_1514230398 0.4824142 311 0.02489452 5963 0.6066508 NC 0 0.9738903 0.6315453 0.9927174
cnvi0000009-126_B_R_1514230399 -0.1174112 436 0.04238842 7037 0.7158032 NC 0 0.9623446 0.7581916 0.9779848
cnvi0000010-126_T_F_1514230400 -0.003796149 12032 1.855734 1781 0.1725956 NC 0 0.05904001 2.02833 0
cnvi0000011-126_T_F_1514230401 0.1777793 8483 1.304798 1162 0.1122579 NC 0 0.05463684 1.417056 0.0001944052
cnvi0000012-126_B_F_1514265399 -0.119787 4340 0.6619006 302 0.02784566 NC 0 0.02676633 0.6897463 0.01067807
cnvi0000013-126_T_R_1514265400 -0.1336777 6666 1.015091 5053 0.5093861 NC 0 0.29609 1.524477 0
cnvi0000014-126_T_F_1514265401 0.08887226 5598 0.8577743 199 0.01643804 NC 0 0.01219843 0.8742124 0.0003927303
cnvi0000015-126_T_F_1514265402 0.07752797 2494 0.3151616 19383 1.893418 NC 0 0.8949966 2.208579 0.9796758
cnvi0000016-126_B_F_1514230402 0.09479292 7586 1.165352 1115 0.1081408 NC 0 0.0589075 1.273493 0
cnvi0000017-126_B_F_1514265403 0.05042401 10739 1.655214 1445 0.139375 NC 0 0.05347954 1.794589 0
cnvi0000018-126_T_F_1514265404 0.0354508 918 0.1001884 16496 1.677595 NC 0 0.9620253 1.777784 1
cnvi0000019-126_B_F_1514230403 -0.08264081 751 0.06239539 15679 1.532713 NC 0 0.9740981 1.595109 1
cnvi0000020-126_T_F_1514230404 0.08862891 886 0.09226342 18119 1.842707 NC 0 0.9681513 1.93497 1
cnvi0000021-126_T_R_1514230405 0.2269205 458 0.03859589 11010 1.119912 NC 0 0.9780686 1.158508 0.9944709

Total number of rows: 373397

Table truncated, full table size 39855 Kbytes.




Supplementary data files not provided
Processed data included within Sample table
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