CNAG (Copy Number Analyzer for Affymetrix GeneChip)
About CNAG
CNAG is the software developed specifically for analyzing copy number alterations and LOH in cancer cells using Affymetrix GeneChip® platform. It implements a robust algorithm to correct between-chip variations introduced by the subtle difference in experimental conditions, enabling high quality copy number analysis.
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Publications
A Robust Algorithm for Copy Number Detection Using High-Density Oligonucleotide Single Nucleotide Polymorphism Genotyping Arrays.
Yasuhito Nannya, Masashi Sanada, Kumi Nakazaki, Noriko Hosoya, Lili Wang, Akira Hangaishi, Mineo Kurokawa, Shigeru Chiba, Dione K. Bailey, Giulia C. Kennedy, and Seishi Ogawa
Cancer Res 2005 65: 6071-6079. [PubMed]
Highly sensitive method for genomewide detection of allelic composition in nonpaired, primary tumor specimens by use of affymetrix single-nucleotide-polymorphism genotyping microarrays.
Go Yamamoto, Yasuhito Nannya, Motohiro Kato, Masashi Sanada, Ross L. Levine, Norihiko Kawamata, Akira Hangaishi, Mineo Kurokawa, Shigeru Chiba, D. Gary Gilliland, H. Phillip Koeffler, and Seishi Ogawa
Am J Hum Genet. 2007 Jul;81(1):114-26. [Pubmed]
Genome-wide copy number analysis on GeneChip platform using copy number analyzer for affymetrix GeneChip(R) 2.0 software.
Ogawa S, Nanya Y, Yamamoto G.
Methods Mol Biol. 2007;396:185-206. [Pubmed]