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Sample GSM475301 Query DataSets for GSM475301
Status Public on Dec 01, 2009
Title Bladder tumor REF14
Sample type genomic
 
Source name Bladder tumor
Organism Homo sapiens
Characteristics patient_id: P.REF14
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 0.1286357 2669 0.4224112 75 0.004789759 NC 0 0.00721838 0.4272009 0
cnvi0000002-126_T_R_1514230396 0.1341778 479 0.04514505 8553 1.007085 NC 0 0.9714811 1.05223 1
cnvi0000003-126_T_F_1514230397 0.2067988 8664 1.399738 339 0.03001473 NC 0 0.01364901 1.429753 0.004387543
cnvi0000004-126_T_F_1514265395 -0.0585302 333 0.01999917 9116 1.073645 NC 0 0.9881428 1.093644 0.9977218
cnvi0000005-126_T_R_1514265396 0.05522018 4540 0.7264614 567 0.06098289 NC 0 0.05331613 0.7874442 0.02096601
cnvi0000006-126_B_R_1514265397 0.1480559 2096 0.3289509 70 0.004765616 NC 0 0.009222269 0.3337165 0
cnvi0000008-126_T_F_1514230398 0.1411888 336 0.03265248 3964 0.4658708 NC 0 0.9554527 0.4985233 0.971304
cnvi0000009-126_B_R_1514230399 -0.1125612 421 0.04144452 6113 0.7193003 NC 0 0.9633599 0.7607448 0.9791822
cnvi0000010-126_T_F_1514230400 -0.1052394 10727 1.73369 1432 0.1569171 NC 0 0.0574642 1.890607 0
cnvi0000011-126_T_F_1514230401 -0.1353616 6586 1.059784 752 0.08078706 NC 0 0.0484357 1.140571 0
cnvi0000012-126_B_F_1514265399 -0.01298297 4526 0.725044 200 0.01770243 NC 0 0.01554041 0.7427465 0
cnvi0000013-126_T_R_1514265400 -0.03856502 6366 1.013205 5280 0.6151636 NC 0 0.3473764 1.628369 0.0799711
cnvi0000014-126_T_F_1514265401 0.02704731 5070 0.8136509 257 0.02388955 NC 0 0.01868638 0.8375404 0.007592339
cnvi0000015-126_T_F_1514265402 -0.02442602 2132 0.2830517 15511 1.774836 NC 0 0.8993194 2.057888 0.9855425
cnvi0000016-126_B_F_1514230402 -0.06131456 6442 1.035769 974 0.1071181 NC 0 0.06560531 1.142887 0
cnvi0000017-126_B_F_1514265403 0.01177038 9875 1.594813 1386 0.1523317 NC 0 0.06062406 1.747145 0
cnvi0000018-126_T_F_1514265404 0.09761249 996 0.1147776 14781 1.74128 NC 0 0.9580974 1.856057 1
cnvi0000019-126_B_F_1514230403 -0.005943326 914 0.09532108 13861 1.586882 NC 0 0.9618053 1.682204 1
cnvi0000020-126_T_F_1514230404 -0.1385959 739 0.07614982 13385 1.57685 NC 0 0.96928 1.653 1
cnvi0000021-126_T_R_1514230405 0.06035872 334 0.02142072 8583 1.010767 NC 0 0.9865105 1.032188 1

Total number of rows: 373397

Table truncated, full table size 40051 Kbytes.




Supplementary data files not provided
Processed data included within Sample table
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