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Series GSE39281 Query DataSets for GSE39281
Status Public on Jul 07, 2013
Title DNA copy number gain at 1q23.3 is associated with poor survival in metastatic bladder cancer [Agilent]
Organism Homo sapiens
Experiment type Genome variation profiling by genome tiling array
Summary Metastatic urothelial carcinoma (UC) of the bladder is associated with multiple somatic copy number alterations (SCNAs). We evaluated SCNAs to identify predictors of poor survival in patients with metastatic UC treated with platinum chemotherapy.
 
Overall design We obtained overall survival (OS) and DNA copy number data from UC patients in a Spanish discovery cohort and three validation cohorts.
GISTIC was used to identify altered regions, and associations between copy number gains/losses and OS were determined by a Cox proportional hazard model adjusting for performance status and visceral disease
The output files of the GISTIC 2.0 software are linked as supplementary files on Series record along with readme.txt file describing the contents of each file/column.
 
Citation(s) 24486590
Submission date Jul 11, 2012
Last update date Oct 27, 2015
Contact name Markus Riester
E-mail(s) markus@jimmy.harvard.edu
Organization name Dana-Farber Cancer Institute
Department Biostatistics & Computational Biology
Lab Michor
Street address 3 Blackfan Circle
City Boston
State/province MA
ZIP/Postal code 02115
Country USA
 
Platforms (1)
GPL10150 Agilent-022060 SurePrint G3 Human CGH Microarray 4x180K (Probe Name version)
Samples (94)
GSM959961 Metastatic Bladder Cancer 1280
GSM959962 Metastatic Bladder Cancer 1281
GSM959963 Metastatic Bladder Cancer 1283
This SubSeries is part of SuperSeries:
GSE39282 DNA copy number gain at 1q23.3 is associated with poor survival in metastatic bladder cancer
Relations
BioProject PRJNA170489

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
GSE39281_GISTIC_README.txt 6.1 Kb (ftp)(http) TXT
GSE39281_RAW.tar 1.7 Gb (http)(custom) TAR (of TXT)
GSE39281_all_data_by_genes.txt.gz 297.1 Kb (ftp)(http) TXT
GSE39281_all_lesions.conf_95.txt.gz 41.2 Kb (ftp)(http) TXT
GSE39281_all_thresholded.by_genes.txt.gz 201.0 Kb (ftp)(http) TXT
GSE39281_amp_genes.conf_95.txt.gz 5.6 Kb (ftp)(http) TXT
GSE39281_amp_qplot.pdf.gz 14.3 Kb (ftp)(http) PDF
GSE39281_arraylistfile.txt.gz 241 b (ftp)(http) TXT
GSE39281_broad_data_by_genes.txt.gz 236.4 Kb (ftp)(http) TXT
GSE39281_broad_significance_results.txt.gz 787 b (ftp)(http) TXT
GSE39281_broad_values_by_arm.txt.gz 4.4 Kb (ftp)(http) TXT
GSE39281_del_genes.conf_95.txt.gz 9.1 Kb (ftp)(http) TXT
GSE39281_del_qplot.pdf.gz 6.9 Kb (ftp)(http) PDF
GSE39281_focal_data_by_genes.txt.gz 274.6 Kb (ftp)(http) TXT
GSE39281_freqarms_vs_ngenes.pdf.gz 2.7 Kb (ftp)(http) PDF
GSE39281_raw_copy_number.pdf.gz 134.6 Kb (ftp)(http) PDF
GSE39281_regions_track.conf_95.bed.gz 1.3 Kb (ftp)(http) BED
GSE39281_sample_cutoffs.txt.gz 784 b (ftp)(http) TXT
GSE39281_spanishaCGH.glad.txt.gz 216.3 Kb (ftp)(http) TXT
GSE39281_spanishaCGH_clinical.txt.gz 1.4 Kb (ftp)(http) TXT
Processed data included within Sample table
Processed data are available on Series record
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