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Sample GSM475295 Query DataSets for GSM475295
Status Public on Dec 01, 2009
Title Bladder tumor REF8
Sample type genomic
 
Source name Bladder tumor
Organism Homo sapiens
Characteristics patient_id: P.REF8
sex: Male
stage: T1a
grade: G1
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 -0.9467389 666 0.1903179 79 0.01240935 NC 0 0.041451 0.2027273 0.02741975
cnvi0000002-126_T_R_1514230396 -0.2473844 194 0.03277158 4726 0.7749265 NC 0 0.9730935 0.8076981 1
cnvi0000003-126_T_F_1514230397 -0.1561335 3694 1.094211 151 0.01753936 NC 0 0.01020365 1.111751 0.0005716161
cnvi0000004-126_T_F_1514265395 0.1266621 138 0.005964126 7548 1.237475 NC 0 0.9969318 1.243439 1
cnvi0000005-126_T_R_1514265396 -0.3907337 1855 0.5448383 222 0.03322355 NC 0 0.03877226 0.5780619 0.004291819
cnvi0000006-126_B_R_1514265397 -1.252548 451 0.126402 0 0 NC 0 0 0.126402 0
cnvi0000008-126_T_F_1514230398 -0.1882546 133 0.02331725 2275 0.3734292 NC 0 0.9603004 0.3967465 0.9769341
cnvi0000009-126_B_R_1514230399 -0.1925265 173 0.02832383 4216 0.6914019 NC 0 0.9739349 0.7197257 0.9916539
cnvi0000010-126_T_F_1514230400 0.2514903 7533 2.236703 1220 0.1842562 NC 0 0.0523256 2.420959 0
cnvi0000011-126_T_F_1514230401 0.07447776 4232 1.253788 450 0.06535003 NC 0 0.03315195 1.319138 0
cnvi0000012-126_B_F_1514265399 -0.391636 1870 0.5495675 152 0.02172001 NC 0 0.0251474 0.5712875 0.008867154
cnvi0000013-126_T_R_1514265400 0.1845351 4284 1.256691 3982 0.6440045 NC 0 0.3014816 1.900696 0
cnvi0000014-126_T_F_1514265401 -0.1045831 2510 0.7405907 174 0.02391563 NC 0 0.02055099 0.7645063 0.00966148
cnvi0000015-126_T_F_1514265402 0.5122631 1320 0.2954113 16963 2.689842 NC 0 0.9303625 2.985254 1
cnvi0000016-126_B_F_1514230402 0.5011073 5321 1.577937 736 0.1098171 NC 0 0.04423443 1.687754 0
cnvi0000017-126_B_F_1514265403 0.4907398 7486 2.222044 1395 0.2130359 NC 0 0.06084922 2.43508 0
cnvi0000018-126_T_F_1514265404 0.4001722 703 0.1550889 13027 2.134044 NC 0 0.9538156 2.289133 0.9988082
cnvi0000019-126_B_F_1514230403 -0.07946979 456 0.07798123 9587 1.520637 NC 0 0.9673815 1.598619 1
cnvi0000020-126_T_F_1514230404 0.3258972 581 0.1180382 13201 2.162825 NC 0 0.9652903 2.280863 1
cnvi0000021-126_T_R_1514230405 -0.098633 177 0.02497914 5486 0.8995008 NC 0 0.9823256 0.92448 0.9994944

Total number of rows: 373397

Table truncated, full table size 39663 Kbytes.




Supplementary data files not provided
Processed data included within Sample table
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