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Journal Articles Briefings in Bioinformatics Year : 2010

Preprocessing and downstream analysis of microarray DNA copy number profiles

M.A. van de Wiel
  • Function : Author
W.N. van Wieringen
  • Function : Author
B. Ylstra
  • Function : Author

Abstract

Analysis of DNA copy number profiles requires methods tailored to the specific nature of these data. The number of available data analysis methods has grown enormously in the last 5 years. We discuss the typical characteristics of DNA copy number data, as measured by microarray technology and review the extensive literature on preprocessing methods such as segmentation and calling. Subsequently, the focus narrows to applications of DNA copy number in cancer, in particular, several downstream analyses of multi-sample data sets such as testing, clustering and classification. Finally, we look ahead: what should we prepare for and which methodology-related topics may deserve attention in the near future?.

Dates and versions

hal-00539440 , version 1 (24-11-2010)

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M.A. van de Wiel, Franck Picard, W.N. van Wieringen, B. Ylstra. Preprocessing and downstream analysis of microarray DNA copy number profiles. Briefings in Bioinformatics, 2010, 12 (1), pp.10-21. ⟨10.1093/bib/bbq004⟩. ⟨hal-00539440⟩
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