ArticleBMC bioinformatics2010
CONAN: copy number variation analysis software for genome-wide association studies.
Article in BMC bioinformatics, 2010. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 18 papers.
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Who cites it
18 citing papers in PubMed.
- Computational strategies for copy number variation detection, disease association, and beyond.Genome biology · 2026Review
- CNR1 and CNR2 Cannabinoid Receptor Mutations in Cancer Cells.Current issues in molecular biology · 2026Article
- Article
- Harnessing big data for enhanced genome-wide prediction in winter wheat breeding.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2025Article
- CNVDeep: deep association of copy number variants with neurocognitive disorders.BMC bioinformatics · 2024Article
- In silico analysis of several frequent SLX4 mutations appearing in human cancers.microPublication biology · 2024Article
- Accurate prediction of quantitative traits with failed SNP calls in canola and maize.Frontiers in plant science · 2023Article
- Frequent homozygous deletions of the CDKN2A locus in somatic cancer tissues.Mutation research · 2019Article
- SMYD5 Controls Heterochromatin and Chromosome Integrity during Embryonic Stem Cell Differentiation.Cancer research · 2017Article
- Detection of genome-wide copy number variations in two chicken lines divergently selected for abdominal fat content.BMC genomics · 2014Article
- Improving genetic risk prediction by leveraging pleiotropy.Human genetics · 2014Article
- Genome wide analysis reveals single nucleotide polymorphisms associated with fatness and putative novel copy number variants in three pig breeds.BMC genomics · 2013Article
- DEAR1 is a chromosome 1p35 tumor suppressor and master regulator of TGF-β-driven epithelial-mesenchymal transition.Cancer discovery · 2013Article
- ParseCNV integrative copy number variation association software with quality tracking.Nucleic acids research · 2013Article
- Effect of Combining Multiple CNV Defining Algorithms on the Reliability of CNV Calls from SNP Genotyping Data.Genomics & informatics · 2012Article
- Rapid visualisation of microarray copy number data for the detection of structural variations linked to a disease phenotype.PloS one · 2012Article
- A comparison of genomic copy number calls by Partek Genomics Suite, Genotyping Console and Birdsuite algorithms to quantitative PCR.BioData mining · 2011Article
- Beyond missing heritability: prediction of complex traits.PLoS genetics · 2011Article
Corrections and comments
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Authors and funding
10 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundGenome-wide association studies (GWAS) based on single nucleotide polymorphisms (SNPs) revolutionized our perception of the genetic regulation of complex traits and diseases. Copy number variations (CNVs) promise to shed additional light on the genetic basis of monogenic as well as complex diseases and phenotypes. Indeed, the number of detected associations between CNVs and certain phenotypes are constantly increasing. However, while several software packages support the determination of CNVs from SNP chip data, the downstream statistical inference of CNV-phenotype associations is still subject to complicated and inefficient in-house solutions, thus strongly limiting the performance of GWAS based on CNVs.
resultsCONAN is a freely available client-server software solution which provides an intuitive graphical user interface for categorizing, analyzing and associating CNVs with phenotypes. Moreover, CONAN assists the evaluation process by visualizing detected associations via Manhattan plots in order to enable a rapid identification of genome-wide significant CNV regions. Various file formats including the information on CNVs in population samples are supported as input data.
conclusionsCONAN facilitates the performance of GWAS based on CNVs and the visual analysis of calculated results. CONAN provides a rapid, valid and straightforward software solution to identify genetic variation underlying the 'missing' heritability for complex traits that remains unexplained by recent GWAS. The freely available software can be downloaded at http://genepi-conan.i-med.ac.at.
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