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

Da Silva, Vinicius and Ramos, Marcel and Groenen, Martien and Crooijmans, Richard and Johansson, Anna Maria and Regitano, Luciana and Coutinho, Luiz and Zimmer, Ralf and Waldron, Levi and Geistlinger, Ludwig (2020). CNVRanger: association analysis of CNVs with gene expression and quantitative phenotypes. Bioinformatics. 36 , 972-973
[Other publication in scientific journal]

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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.

Authors/Creators:Da Silva, Vinicius and Ramos, Marcel and Groenen, Martien and Crooijmans, Richard and Johansson, Anna Maria and Regitano, Luciana and Coutinho, Luiz and Zimmer, Ralf and Waldron, Levi and Geistlinger, Ludwig
Title:CNVRanger: association analysis of CNVs with gene expression and quantitative phenotypes
Year of publishing :2020
Volume:36
Page range:972-973
Number of Pages:2
Publisher:Oxford University Press
ISSN:1367-4803
Language:English
Publication Type:Other publication in scientific journal
Article category:Scientific peer reviewed
Version:Published version
Copyright:Creative Commons: Attribution 4.0
Full Text Status:Public
Subjects:(A) Swedish standard research categories 2011 > 1 Natural sciences > 102 Computer and Information Science > 10203 Bioinformatics (Computational Biology) (applications to be 10610)
Keywords:Copy number variation (CNV), structural genomic variation, SNP-arrays, next-generation sequencing data
URN:NBN:urn:nbn:se:slu:epsilon-p-101819
Permanent URL:
http://urn.kb.se/resolve?urn=urn:nbn:se:slu:epsilon-p-101819
Additional ID:
Type of IDID
DOI10.1093/bioinformatics/btz632
Web of Science (WoS)000515095200056
ID Code:16781
Faculty:VH - Faculty of Veterinary Medicine and Animal Science
Department:(VH) > Dept. of Animal Breeding and Genetics
Deposited By: SLUpub Connector
Deposited On:26 Mar 2020 14:07
Metadata Last Modified:26 Mar 2020 14:07

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