title: Computational methods for DNA copy-number analysis of tumors.
abstract: Study of DNA copy-number variation is a key part of cancer genomics. With the help of a comprehensive multistep computational procedure described here, copy-number profiles of tumor tissues or individual tumor cells may be generated and interpreted, starting with data acquired by next-generation sequencing. Several of the methods presented are specifically designed to handle cancer-related copy-number profiles. These include accounting for variation of ploidy and distilling somatic copy number alterations from the inherited background.
authors.affiliation: Cold Spring Harbor Laboratory, 1 Bungtown Road, 11724, Cold Spring Harbor, NY, USA.
authors.forename: Jude
authors.initials: J
authors.lastname: Kendall
authors.forename: Alexander
authors.initials: A
authors.lastname: Krasnitz
mesh_terms: D000465:Algorithms; D001482:Base Composition; D002874:Chromosome Mapping; D019295:Computational Biology / Q000379:methods*; D056915:DNA Copy Number Variations; D023281:Genomics / Q000379:methods*; D059014:High-Throughput Nucleotide Sequencing; D006801:Humans; D009369:Neoplasms / Q000235:genetics*; D011003:Ploidies; D059010:Single-Cell Analysis