title: DiNAMIC: a method to identify recurrent DNA copy number aberrations in tumors.
abstract: BACKGROUND
  DNA copy number gains and losses are commonly found in tumor tissue, and some of these aberrations play a role in tumor genesis and development. Although high resolution DNA copy number data can be obtained using array-based techniques, no single method is widely used to distinguish between recurrent and sporadic copy number aberrations.
  
  
  RESULTS
  Here we introduce Discovering Copy Number Aberrations Manifested In Cancer (DiNAMIC), a novel method for assessing the statistical significance of recurrent copy number aberrations. In contrast to competing procedures, the testing procedure underlying DiNAMIC is carefully motivated, and employs a novel cyclic permutation scheme. Extensive simulation studies show that DiNAMIC controls false positive discoveries in a variety of realistic scenarios. We use DiNAMIC to analyze two publicly available tumor datasets, and our results show that DiNAMIC detects multiple loci that have biological relevance.
  
  
  BACKGROUND
  Source code implemented in R, as well as text files containing examples and sample datasets are available at http://www.bios.unc.edu/research/genomic_software/DiNAMIC.
authors.affiliation: Department of Biostatistics, University of North Carolina at Chapel Hill, Chapel Hill, NC 27599, USA. vwalter@email.unc.edu
authors.forename: Vonn
authors.initials: V
authors.lastname: Walter
authors.forename: Andrew B
authors.initials: AB
authors.lastname: Nobel
authors.forename: Fred A
authors.initials: FA
authors.lastname: Wright
mesh_terms: D000465:Algorithms; D019295:Computational Biology / Q000379:methods; D056915:DNA Copy Number Variations; D004273:DNA, Neoplasm / Q000235:genetics; D006801:Humans; D009369:Neoplasms / Q000235:genetics*; D017422:Sequence Analysis, DNA / Q000379:methods*; D012984:Software
chemical_list: D004273:DNA, Neoplasm