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Sample GSM475300 Query DataSets for GSM475300
Status Public on Dec 01, 2009
Title Bladder tumor REF13
Sample type genomic
 
Source name Bladder tumor
Organism Homo sapiens
Characteristics patient_id: P.REF13
sex: Male
stage: T3b
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 0.1508328 2393 0.4212492 128 0.01257544 NC 0 0.01899919 0.4338246 0.002820687
cnvi0000002-126_T_R_1514230396 0.151344 372 0.03441231 8212 1.030413 NC 0 0.978747 1.064825 1
cnvi0000003-126_T_F_1514230397 0.09119329 7286 1.297438 251 0.02221606 NC 0 0.01089979 1.319654 0.001342628
cnvi0000004-126_T_F_1514265395 0.02669755 335 0.02523344 9044 1.134965 NC 0 0.9858485 1.160198 0.9950536
cnvi0000005-126_T_R_1514265396 0.3755852 5063 0.897714 734 0.08552548 NC 0 0.06046845 0.9832394 0.02916598
cnvi0000006-126_B_R_1514265397 0.6253688 2550 0.4493048 151 0.01527808 NC 0 0.02163917 0.4645828 0.002090587
cnvi0000008-126_T_F_1514230398 0.1363238 233 0.02309989 3779 0.4737451 NC 0 0.9689829 0.496845 0.9870179
cnvi0000009-126_B_R_1514230399 -0.132264 384 0.04448006 5629 0.7059458 NC 0 0.959941 0.7504259 0.9751501
cnvi0000010-126_T_F_1514230400 0.04573104 10862 1.934487 1419 0.1646837 NC 0 0.05406534 2.099171 0
cnvi0000011-126_T_F_1514230401 0.1350537 7121 1.265742 948 0.1099627 NC 0 0.05516849 1.375705 0.0008282906
cnvi0000012-126_B_F_1514265399 0.0278937 4222 0.7487894 167 0.01530267 NC 0 0.0130085 0.7640921 0
cnvi0000013-126_T_R_1514265400 0.1079309 7132 1.257088 4414 0.5453167 NC 0 0.2605654 1.802405 0
cnvi0000014-126_T_F_1514265401 -0.02225771 4531 0.804388 88 0.005012536 NC 0 0.003967039 0.8094006 0
cnvi0000015-126_T_F_1514265402 0.009814212 1876 0.2686851 15161 1.838628 NC 0 0.9076225 2.107313 0.9968109
cnvi0000016-126_B_F_1514230402 0.178867 6901 1.225996 1057 0.1239155 NC 0 0.0641275 1.349911 0
cnvi0000017-126_B_F_1514265403 0.006307559 8948 1.592051 1272 0.1484914 NC 0 0.05920656 1.740542 0
cnvi0000018-126_T_F_1514265404 0.03292242 696 0.07614175 13534 1.698529 NC 0 0.9714807 1.774671 1
cnvi0000019-126_B_F_1514230403 -0.05596426 755 0.08103973 12726 1.543838 NC 0 0.9666129 1.624878 1
cnvi0000020-126_T_F_1514230404 0.02588145 789 0.09126665 14035 1.761349 NC 0 0.9670422 1.852616 1
cnvi0000021-126_T_R_1514230405 0.09815136 273 0.01636715 8313 1.043217 NC 0 0.9900128 1.059584 1

Total number of rows: 373397

Table truncated, full table size 39887 Kbytes.




Supplementary data files not provided
Processed data included within Sample table
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