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Series GSE19189 Query DataSets for GSE19189
Status Public on Dec 01, 2009
Title SNP data from 20 bladder tumors
Organism Homo sapiens
Experiment type Genome variation profiling by SNP array
Summary We present the first computational approach to reconstruct the sequence of copy number alterations driving carcinogenesis from the analysis of several tumor samples of a same patient. Applied to BAC array-CGH and SNP array data from bladder and breast cancers, this method proved highly valuable to establish the clonal relationships between primary tumors and recurrences and to identify the chromosome aberrations at the initiation of tumorigenesis.
 
Overall design An algorithm was developed to reconstruct tumors lineage and the sequence of copy number alterations along tumorigenesis from the analysis of several samples from a same patient. The data here consist in Illumina SNP data from 20 bladder tumors. 15 of these tumors (REF1 to REF15) come from independent samples and were used to compute the frequencies of breakpoints at each location. The 5 other samples (S4_A, S4_B, S5_A, S5_B, and S5_C) are multiple tumors from 2 patients. They were used to reconstruct the sequence of chromosome aberrations along cancer development in these 2 patients.
 
Contributor(s) Allory Y, Letouzé E, Radvanyi F
Citation(s) 20649963
Submission date Nov 25, 2009
Last update date Jan 30, 2015
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
 
Platforms (1)
GPL6985 Illumina HumanCNV370-QuadV3 DNA Analysis BeadChip (HumanCNV370-QuadV3_C)
Samples (20)
GSM475283 Bladder tumor S4_A
GSM475284 Bladder tumor S4_B
GSM475285 Bladder tumor S5_A
This SubSeries is part of SuperSeries:
GSE19195 Analysis of copy number profiles of several tumor samples of same patient reveals the successive steps in tumorigenesis
Relations
BioProject PRJNA123745

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE19189_RAW.tar 36.3 Mb (http)(custom) TAR
Processed data included within Sample table

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