Origins and functional impact of copy number variation in the human genome

Origins and functional impact of copy number variation in the human genome

2010 April 1 | Donald F. Conrad, Dalila Pinto, Richard Redon, Lars Feuk, Omer Gokcumen, Yujun Zhang, Jan Aerts, T. Daniel Andrews, Chris Barnes, Peter Campbell, Tomas Fitzgerald, Min Hu, Chun Hwa Ihm, Kati Kristiansson, Daniel G. MacArthur, Jeffrey R. MacDonald, Ijejelino Onyiah, Andy Wing Chun Pang, Sam Robson, Kathy Stirrups, Armand Valsesia, Klaudia Walter, John Wei, Wellcome Trust Case Control Consortium, Chris Tyler-Smith, Nigel P. Carter, Charles Lee, Stephen W. Scherer, and Matthew E. Hurles
This study presents a comprehensive analysis of copy number variations (CNVs) in the human genome, identifying 11,700 CNVs greater than 443 base pairs, with 8,599 validated independently. Using tiling oligonucleotide microarrays, the researchers mapped these CNVs across 450 individuals of European, African, and East Asian ancestry. They found that CNVs are associated with various traits and diseases, with 30 loci identified as potential candidates for influencing disease susceptibility. However, the study concludes that common CNVs do not account for the heritability void left by genome-wide association studies. The study highlights the functional impact of CNVs, showing that they can affect gene expression and structure, and are involved in various biological processes. The researchers also identified 56 potential fusion genes, with four experimentally validated. They found that CNVs are generated by different mutational mechanisms, including retrotransposition, non-allelic homologous recombination, and tandem repeats. The study also discusses the population genetics of CNVs, showing that they are more likely to be tagged by SNPs in certain regions and that purifying selection acts on exonic and intronic CNVs. The study emphasizes the importance of CNVs in complex trait genetics, noting that while they may explain less than 5% of previously reported GWAS hits, they are still important for understanding the genetic basis of diseases. The researchers also discuss the challenges of genotyping CNVs, particularly duplications and multiallelic loci, and the need for further studies to better understand their role in human genetics. The study concludes that CNVs are an important component of genetic variation and that further research is needed to fully understand their impact on human health and disease.This study presents a comprehensive analysis of copy number variations (CNVs) in the human genome, identifying 11,700 CNVs greater than 443 base pairs, with 8,599 validated independently. Using tiling oligonucleotide microarrays, the researchers mapped these CNVs across 450 individuals of European, African, and East Asian ancestry. They found that CNVs are associated with various traits and diseases, with 30 loci identified as potential candidates for influencing disease susceptibility. However, the study concludes that common CNVs do not account for the heritability void left by genome-wide association studies. The study highlights the functional impact of CNVs, showing that they can affect gene expression and structure, and are involved in various biological processes. The researchers also identified 56 potential fusion genes, with four experimentally validated. They found that CNVs are generated by different mutational mechanisms, including retrotransposition, non-allelic homologous recombination, and tandem repeats. The study also discusses the population genetics of CNVs, showing that they are more likely to be tagged by SNPs in certain regions and that purifying selection acts on exonic and intronic CNVs. The study emphasizes the importance of CNVs in complex trait genetics, noting that while they may explain less than 5% of previously reported GWAS hits, they are still important for understanding the genetic basis of diseases. The researchers also discuss the challenges of genotyping CNVs, particularly duplications and multiallelic loci, and the need for further studies to better understand their role in human genetics. The study concludes that CNVs are an important component of genetic variation and that further research is needed to fully understand their impact on human health and disease.
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