Software comparison for evaluating genomic copy number variation for Affymetrix 6.0 SNP array platform-Reference-Cited by-同舟云学术

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Software comparison for evaluating genomic copy number variation for Affymetrix 6.0 SNP array platform

Published:2011-05-31 Issue:1 Volume:12 Page:
ISSN:1471-2105
Container-title:BMC Bioinformatics
language:en
Short-container-title:BMC Bioinformatics

Author:

Eckel-Passow Jeanette E,Atkinson Elizabeth J,Maharjan Sooraj,Kardia Sharon LR,de Andrade Mariza

Publisher

Springer Science and Business Media LLC

Subject

Applied Mathematics,Computer Science Applications,Molecular Biology,Biochemistry,Structural Biology

Link

http://link.springer.com/content/pdf/10.1186/1471-2105-12-220.pdf

Reference15 articles.

1. Scharpf RB, Ruczinski I, Carvalho B, Doan B, Chakravarti A, Irizarry RA: A multilevel model to address batch effects in copy number estimation using SNP arrays. Biostatistics 2011, 12: 33–50. 10.1093/biostatistics/kxq043

2. Baross A, Delaney AD, Li HI, Nayar T, Flibotte S, Qian H, Chan SY, Asano J, Ally A, Cao M, Birch P, Brown-John M, Fernandes N, Go A, Kennedy G, Langlois S, Eydoux P, Friedman JM, Marra MA: Assessment of algorithms for high throughput detection of genomic copy number variation in oligonucleotide microarray data. BMC Bioinformatics 2007, 8: 368. 10.1186/1471-2105-8-368

3. Winchester L, Yau C, Ragoussis J: Comparing CNV detection methods for SNP arrays. Briefings in Functional Genomics and Proteomics 2009, 8: 353–366. 10.1093/bfgp/elp017

4. Wang K, Li M, Hadley D, Liu R, Glessner J, Grant S, Hakonarson H, Bucan M: PennCNV: an integrated hidden Markov model designed for high-resolution copy number variation detection in whole-genome SNP genotyping data. Genome Research 2007, 17: 1665–1674. 10.1101/gr.6861907

5. Bengtsson H, Wirapati P, Speed T: GenomeWideSNP 5 & 6. Bioinformatics 2009, 25(17):2149–2156. 10.1093/bioinformatics/btn016

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