CNVRanger: association analysis of CNVs with gene expression and quantitative phenotypes

da Silva, Vinicius; Ramos, Marcel; Groenen, Martien; Crooijmans, Richard; Johansson, Anna; Regitano, Luciana; Coutinho, Luiz; Zimmer, Ralf; Waldron, Levi and Geistlinger, Ludwig (2020): CNVRanger: association analysis of CNVs with gene expression and quantitative phenotypes. In: Bioinformatics, Vol. 36, No. 3: pp. 972-973

Abstract

A Summary: Copy number variation (CNV) is a major type of structural genomic variation that is increasingly studied across different species for association with diseases and production traits. Established protocols for experimental detection and computational inference of CNVs from SNP array and next-generation sequencing data are available. We present the CNVRanger R/Bioconductor package which implements a comprehensive toolbox for structured downstream analysis of CNVs. This includes functionality for summarizing individual CNV calls across a population, assessing overlap with functional genomic regions, and genome-wide association analysis with gene expression and quantitative phenotypes.

• Item Type: Journal article
• Faculties: Mathematics, Computer Science and Statistics > Computer Science
• Subjects: 000 Computer science, information and general works > 004 Data processing computer science
• ISSN: 1367-4803
• Language: English