GeneCount: genome-wide calculation of absolute tumor DNA copy numbers from array comparative genomic hybridization data

Absolute tumor DNA copy numbers can currently be achieved only on a single gene basis by using fluorescence in situ hybridization (FISH). We present GeneCount, a method for genome-wide calculation of absolute copy numbers from clinical array comparative genomic hybridization data. The tumor cell fra...

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Detalles Bibliográficos
Autores principales: Lyng, Heidi, Lando, Malin, Brøvig, Runar S, Svendsrud, Debbie H, Johansen, Morten, Galteland, Eivind, Brustugun, Odd T, Meza-Zepeda, Leonardo A, Myklebost, Ola, Kristensen, Gunnar B, Hovig, Eivind, Stokke, Trond
Formato: Texto
Lenguaje:English
Publicado: BioMed Central 2008
Materias:
Method
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2441472/
https://www.ncbi.nlm.nih.gov/pubmed/18500990
http://dx.doi.org/10.1186/gb-2008-9-5-r86
Descripción
Sumario:Absolute tumor DNA copy numbers can currently be achieved only on a single gene basis by using fluorescence in situ hybridization (FISH). We present GeneCount, a method for genome-wide calculation of absolute copy numbers from clinical array comparative genomic hybridization data. The tumor cell fraction is reliably estimated in the model. Data consistent with FISH results are achieved. We demonstrate significant improvements over existing methods for exploring gene dosages and intratumor copy number heterogeneity in cancers.

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