title: Finding common regions of alteration in copy number data.
abstract: In this chapter, we review some recent methods designed for detecting recurrent copy number regions, that is, genomic regions that show evidence of being altered in a set of samples. We analyze Affymetrix SNP6 data from 87 Her2-type breast tumors from a recent study using three different methods, showing different definitions and features of common regions: studying heterogeneity in copy number profiles, refining candidates for driver oncogenes, and consolidating broad amplifications.
authors: Cancer Research UK Cambridge Research Institute, Li Ka Shing Centre, Cambridge, UK. rueda.om@gmail.com
authors: Oscar M
authors: OM
authors: Rueda
authors: Ramon
authors: R
authors: Diaz-Uriarte
authors: Carlos
authors: C
authors: Caldas
mesh_terms: D001940:Breast / Q000378:metabolism / Q000473:pathology; D001943:Breast Neoplasms / Q000235:genetics* / Q000473:pathology; D056915:DNA Copy Number Variations; D005260:Female; D018628:Gene Dosage; D006801:Humans; D020411:Oligonucleotide Array Sequence Analysis / Q000379:methods*; D020641:Polymorphism, Single Nucleotide; D018719:Erb-b2 Receptor Tyrosine Kinases / Q000235:genetics*
chemical_list: D018719:Erb-b2 Receptor Tyrosine Kinases