VCS: Tool for Visualizing Copy Number Variation and Single Nucleotide Polymorphism |
Kim, HyoYoung
(Department of Agricultural Biotechnology, Seoul National University)
Sung, Samsun (CHO&KIM Genomics, Seoul National University Research Park) Cho, Seoae (CHO&KIM Genomics, Seoul National University Research Park) Kim, Tae-Hun (Division of Animal Genomics and Bioinformatics, National Institute of Animal Science, Rural Development Administration) Seo, Kangseok (Animal Genetic Evaluation Division, National Livestock Research Institute, RDA) Kim, Heebal (Department of Agricultural Biotechnology, Seoul National University) |
1 | Bengtsson, H., K. Simpson, J. Bullard, and K. Hansen. 2008. aroma. affymetrix: A generic framework in R for analyzing small to very large Affymetrix data sets in bounded memory. Department of Statistics, University Of California, Berkeley, CA, USA. |
2 | Diskin, S., C. Hou, J. Glessner, E. Attiyeh, M. Laudenslager, K. Bosse, K. Cole, Y. Mosse, A. Wood, and J. Lynch et al. 2009. Copy number variation at 1q21. 1 associated with neuroblastoma. Nature 459:987-991. DOI ScienceOn |
3 | Feuk, L., A. R. Carson, and S. W. Scherer. 2006. Structural variation in the human genome. Nat. Rev. Genet. 7:85-97. |
4 | Kim, H.-Y., M.-J. Byun, and H. Kim. 2011. A replication study of genome-wide CNV association for hepatic biomarkers identifies nine genes associated with liver function. BMB Rep. 44:578-583. DOI ScienceOn |
5 | O'Donovan, M., G. Kirov, and M. Owen. 2008. Phenotypic variations on the theme of CNVs. Nat. Genet. 40:1392-1393. DOI ScienceOn |
6 | Kim, H. Y., J. Yu, and H. Kim. 2010. Analysis of copy number variation in 8,842 Korean individuals reveals 39 genes associated with hepatic biomarkers AST and ALT. BMB Rep. 43:547-553. DOI ScienceOn |
7 | Kim, H.-Y., J.-H. Park, H. Kim, and B.-C. Kang. 2013. Semantic networks for genome-wide CNV associated with AST and ALT in Korean cohorts. Mol. Cell. Toxicol. 9:103-111. 과학기술학회마을 DOI ScienceOn |
8 | Lockstone, H. E. 2011. Exon array data analysis using Affymetrix power tools and R statistical software. Brief. Bioinform. 12:634-644. DOI ScienceOn |
9 | Scharpf, R. B., R. A. Irizarry, M. E. Ritchie, B. Carvalho, and I. Ruczinski. 2011. Using the R package crlmm for genotyping and copy number estimation. J. Stat. Softw. 40:1-32. |
10 | Shlien, A. and D. Malkin. 2009. Copy number variations and cancer. Genome Med. 1:62. DOI ScienceOn |
11 | Wang, K., M. Li, D. Hadley, R. Liu, J. Glessner, S. F. A. Grant, H. Hakonarson, and M. Bucan. 2007. PennCNV: an integrated hidden Markov model designed for high-resolution copy number variation detection in whole-genome SNP genotyping data. Genome Res. 17:1665-1674. DOI ScienceOn |
12 | Glessner, J. T., K. Wang, G. Cai, O. Korvatska, C. E. Kim, S. Wood, H. Zhang, A. Estes, C. Brune, and J. P. Bradfield et al. 2009. Autism genome-wide copy number variation reveals ubiquitin and neuronal genes. Nature 459:569-573. DOI ScienceOn |
13 | Xu, B., A. Woodroffe, L. Rodriguez-Murillo, J. L. Roos, E. J. van Rensburg, G. R. Abecasis, J. A. Gogos, and M. Karayiorgou. 2009. Elucidating the genetic architecture of familial schizophrenia using rare copy number variant and linkage scans. Proc. Natl. Acad. Sci. USA 106:16746-16751. DOI ScienceOn |