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CONSERTING: integrating copy-number analysis with structural-variation detection.
Chen, Xiang; Gupta, Pankaj; Wang, Jianmin; Nakitandwe, Joy; Roberts, Kathryn; Dalton, James D; Parker, Matthew; Patel, Samir; Holmfeldt, Linda; Payne, Debbie; Easton, John; Ma, Jing; Rusch, Michael; Wu, Gang; Patel, Aman; Baker, Suzanne J; Dyer, Michael A; Shurtleff, Sheila; Espy, Stephen; Pounds, Stanley; Downing, James R; Ellison, David W; Mullighan, Charles G; Zhang, Jinghui.
Afiliação
  • Chen X; 1] Department of Computational Biology, St. Jude Children's Research Hospital, Memphis, Tennessee, USA. [2] Pediatric Cancer Genome Project, St. Jude Children's Research Hospital and Washington University School of Medicine, Memphis, Tennessee, USA.
  • Gupta P; 1] Department of Computational Biology, St. Jude Children's Research Hospital, Memphis, Tennessee, USA. [2] Pediatric Cancer Genome Project, St. Jude Children's Research Hospital and Washington University School of Medicine, Memphis, Tennessee, USA.
  • Wang J; 1] Pediatric Cancer Genome Project, St. Jude Children's Research Hospital and Washington University School of Medicine, Memphis, Tennessee, USA. [2] Department of Information Sciences, St. Jude Children's Research Hospital, Memphis, Tennessee, USA. [3] Department of Biostatistics and Bioinformatics,
  • Nakitandwe J; 1] Pediatric Cancer Genome Project, St. Jude Children's Research Hospital and Washington University School of Medicine, Memphis, Tennessee, USA. [2] Department of Pathology, St. Jude Children's Research Hospital, Memphis, Tennessee, USA.
  • Roberts K; Department of Pathology, St. Jude Children's Research Hospital, Memphis, Tennessee, USA.
  • Dalton JD; Department of Pathology, St. Jude Children's Research Hospital, Memphis, Tennessee, USA.
  • Parker M; 1] Department of Computational Biology, St. Jude Children's Research Hospital, Memphis, Tennessee, USA. [2] Pediatric Cancer Genome Project, St. Jude Children's Research Hospital and Washington University School of Medicine, Memphis, Tennessee, USA.
  • Patel S; Department of Pathology, St. Jude Children's Research Hospital, Memphis, Tennessee, USA.
  • Holmfeldt L; Department of Pathology, St. Jude Children's Research Hospital, Memphis, Tennessee, USA.
  • Payne D; Department of Pathology, St. Jude Children's Research Hospital, Memphis, Tennessee, USA.
  • Easton J; 1] Pediatric Cancer Genome Project, St. Jude Children's Research Hospital and Washington University School of Medicine, Memphis, Tennessee, USA. [2] Pediatric Cancer Genome Project Laboratory, St. Jude Children's Research Hospital, Memphis, Tennessee, USA.
  • Ma J; 1] Pediatric Cancer Genome Project, St. Jude Children's Research Hospital and Washington University School of Medicine, Memphis, Tennessee, USA. [2] Department of Pathology, St. Jude Children's Research Hospital, Memphis, Tennessee, USA.
  • Rusch M; 1] Department of Computational Biology, St. Jude Children's Research Hospital, Memphis, Tennessee, USA. [2] Pediatric Cancer Genome Project, St. Jude Children's Research Hospital and Washington University School of Medicine, Memphis, Tennessee, USA.
  • Wu G; 1] Department of Computational Biology, St. Jude Children's Research Hospital, Memphis, Tennessee, USA. [2] Pediatric Cancer Genome Project, St. Jude Children's Research Hospital and Washington University School of Medicine, Memphis, Tennessee, USA.
  • Patel A; 1] Department of Computational Biology, St. Jude Children's Research Hospital, Memphis, Tennessee, USA. [2] Pediatric Cancer Genome Project, St. Jude Children's Research Hospital and Washington University School of Medicine, Memphis, Tennessee, USA.
  • Baker SJ; 1] Pediatric Cancer Genome Project, St. Jude Children's Research Hospital and Washington University School of Medicine, Memphis, Tennessee, USA. [2] Department of Developmental Neurobiology, St. Jude Children's Research Hospital, Memphis, Tennessee, USA.
  • Dyer MA; 1] Pediatric Cancer Genome Project, St. Jude Children's Research Hospital and Washington University School of Medicine, Memphis, Tennessee, USA. [2] Department of Developmental Neurobiology, St. Jude Children's Research Hospital, Memphis, Tennessee, USA.
  • Shurtleff S; 1] Pediatric Cancer Genome Project, St. Jude Children's Research Hospital and Washington University School of Medicine, Memphis, Tennessee, USA. [2] Department of Pathology, St. Jude Children's Research Hospital, Memphis, Tennessee, USA.
  • Espy S; Department of Information Sciences, St. Jude Children's Research Hospital, Memphis, Tennessee, USA.
  • Pounds S; Department of Biostatistics, St. Jude Children's Research Hospital, Memphis, Tennessee, USA.
  • Downing JR; 1] Pediatric Cancer Genome Project, St. Jude Children's Research Hospital and Washington University School of Medicine, Memphis, Tennessee, USA. [2] Department of Pathology, St. Jude Children's Research Hospital, Memphis, Tennessee, USA.
  • Ellison DW; 1] Pediatric Cancer Genome Project, St. Jude Children's Research Hospital and Washington University School of Medicine, Memphis, Tennessee, USA. [2] Department of Pathology, St. Jude Children's Research Hospital, Memphis, Tennessee, USA.
  • Mullighan CG; 1] Pediatric Cancer Genome Project, St. Jude Children's Research Hospital and Washington University School of Medicine, Memphis, Tennessee, USA. [2] Department of Pathology, St. Jude Children's Research Hospital, Memphis, Tennessee, USA.
  • Zhang J; 1] Department of Computational Biology, St. Jude Children's Research Hospital, Memphis, Tennessee, USA. [2] Pediatric Cancer Genome Project, St. Jude Children's Research Hospital and Washington University School of Medicine, Memphis, Tennessee, USA.
Nat Methods ; 12(6): 527-30, 2015 Jun.
Article em En | MEDLINE | ID: mdl-25938371
We developed Copy Number Segmentation by Regression Tree in Next Generation Sequencing (CONSERTING), an algorithm for detecting somatic copy-number alteration (CNA) using whole-genome sequencing (WGS) data. CONSERTING performs iterative analysis of segmentation on the basis of changes in read depth and the detection of localized structural variations, with high accuracy and sensitivity. Analysis of 43 cancer genomes from both pediatric and adult patients revealed novel oncogenic CNAs, complex rearrangements and subclonal CNAs missed by alternative approaches.
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Texto completo: 1 Base de dados: MEDLINE Assunto principal: Software / DNA / Genômica / Variações do Número de Cópias de DNA / Neoplasias Idioma: En Ano de publicação: 2015 Tipo de documento: Article
Texto completo
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XML
PubMed Links
Buscar no Google

Texto completo: 1 Base de dados: MEDLINE Assunto principal: Software / DNA / Genômica / Variações do Número de Cópias de DNA / Neoplasias Idioma: En Ano de publicação: 2015 Tipo de documento: Article