Circular binary segmentation for the analysis of array-based DNA copy number data

Olshen, A. B., Venkatraman, E. S., Lucito, R., Wigler, M. H. (October 2004) Circular binary segmentation for the analysis of array-based DNA copy number data. Biostatistics, 5 (4). pp. 557-572. ISSN 1465-4644

URL: https://www.ncbi.nlm.nih.gov/pubmed/15475419
DOI: 10.1093/biostatistics/kxh008

Abstract

DNA sequence copy number is the number of copies of DNA at a region of a genome. Cancer progression often involves alterations in DNA copy number. Newly developed microarray technologies enable simultaneous measurement of copy number at thousands of sites in a genome. We have developed a modification of binary segmentation, which we call circular binary segmentation, to translate noisy intensity measurements into regions of equal copy number. The method is evaluated by simulation and is demonstrated on cell line data with known copy number alterations and on a breast cancer cell line data set.

Item Type: Paper
Uncontrolled Keywords: array CGH binary segmentation change point ROMA Roma COMPARATIVE GENOMIC HYBRIDIZATION Comparative genomic hybridization MICROARRAY ANALYSIS Microarray analysis Regression REGRESSION TUMORS Tumors
Subjects: bioinformatics > genomics and proteomics > analysis and processing > microarray gene expression processing
bioinformatics > genomics and proteomics > genetics & nucleic acid processing > DNA, RNA structure, function, modification > copy number variants
CSHL Authors:
Communities: CSHL labs > Lucito lab
CSHL labs > Wigler lab
Depositing User: Brian Soldo
Date: October 2004
Date Deposited: 29 Mar 2012 14:01
Last Modified: 04 Nov 2016 14:52
Related URLs:
URI: http://repository.cshl.edu/id/eprint/25550

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