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Volumn 35, Issue 7, 2014, Pages 899-907

An Evaluation of Copy Number Variation Detection Tools from Whole-Exome Sequencing Data

Author keywords

Copy number variation; Evaluation studies; Whole exome sequencing; Whole genome sequencing

Indexed keywords

ARTICLE; COMPARATIVE STUDY; CONTROLLED STUDY; COPY NUMBER VARIATION; DATA BASE; EVALUATION STUDY; EXOME; GENE SEQUENCE; HUMAN; PRIORITY JOURNAL; QUALITY CONTROL; ALGORITHM; BIOLOGY; COMPUTER PROGRAM; GENE DELETION; GENOMICS; HETEROZYGOTE; HIGH THROUGHPUT SEQUENCING; INFORMATION PROCESSING; PROCEDURES; SENSITIVITY AND SPECIFICITY; SINGLE NUCLEOTIDE POLYMORPHISM;

EID: 84901982775     PISSN: 10597794     EISSN: 10981004     Source Type: Journal    
DOI: 10.1002/humu.22537     Document Type: Article
Times cited : (178)

References (47)
  • 1
    • 79951970227 scopus 로고    scopus 로고
    • CNVnator: an approach to discover, genotype, and characterize typical and atypical CNVs from family and population genome sequencing
    • Abyzov A, Urban AE, Snyder M, Gerstein M. 2011. CNVnator: an approach to discover, genotype, and characterize typical and atypical CNVs from family and population genome sequencing. Genome Res 21:974-984.
    • (2011) Genome Res , vol.21 , pp. 974-984
    • Abyzov, A.1    Urban, A.E.2    Snyder, M.3    Gerstein, M.4
  • 2
    • 79954672317 scopus 로고    scopus 로고
    • Genome structural variation discovery and genotyping
    • Alkan C, Coe BP, Eichler EE. 2011. Genome structural variation discovery and genotyping. Nat Rev Genet 12:363-376.
    • (2011) Nat Rev Genet , vol.12 , pp. 363-376
    • Alkan, C.1    Coe, B.P.2    Eichler, E.E.3
  • 4
    • 84855982885 scopus 로고    scopus 로고
    • CONDEX: Copy number detection in exome sequences. Bioinformatics and Biomedicine Workshops (BIBMW), 2011 IEEE International Conference.
    • Ramachandran A, Micsinai M, Péer I. 2011. CONDEX: Copy number detection in exome sequences. Bioinformatics and Biomedicine Workshops (BIBMW), 2011 IEEE International Conference.
    • (2011)
    • Ramachandran, A.1    Micsinai, M.2    Péer, I.3
  • 10
    • 84866464291 scopus 로고    scopus 로고
    • An exome sequencing pipeline for identifying and genotyping common CNVs associated with disease with application to psoriasis
    • Coin LJ, Cao D, Ren J, Zuo X, Sun L, Yang S, Zhang X, Cui Y, Li Y, Jin X, Wang J. 2012. An exome sequencing pipeline for identifying and genotyping common CNVs associated with disease with application to psoriasis. Bioinformatics 28:i370-i374.
    • (2012) Bioinformatics , vol.28
    • Coin, L.J.1    Cao, D.2    Ren, J.3    Zuo, X.4    Sun, L.5    Yang, S.6    Zhang, X.7    Cui, Y.8    Li, Y.9    Jin, X.10    Wang, J.11
  • 12
    • 54049144653 scopus 로고    scopus 로고
    • Copy-number variations associated with neuropsychiatric conditions
    • Cook EH, Scherer SW. 2008. Copy-number variations associated with neuropsychiatric conditions. Nature 455:919-923.
    • (2008) Nature , vol.455 , pp. 919-923
    • Cook, E.H.1    Scherer, S.W.2
  • 13
    • 79959671356 scopus 로고    scopus 로고
    • SeqGene: a comprehensive software solution for mining exome- and transcriptome- sequencing data
    • Deng X. 2011. SeqGene: a comprehensive software solution for mining exome- and transcriptome- sequencing data. BMC Bioinformatics 12:267.
    • (2011) BMC Bioinformatics , vol.12 , pp. 267
    • Deng, X.1
  • 16
    • 84888990872 scopus 로고    scopus 로고
    • Comparative study of exome copy number variation estimation tools using array comparative genomic hybridization as control
    • Guo Y, Sheng Q, Samuels DC, Lehmann B, Bauer JA, Pietenpol J, Shyr Y. 2013. Comparative study of exome copy number variation estimation tools using array comparative genomic hybridization as control. BioMed Res Int 2013:7.
    • (2013) BioMed Res Int , vol.2013 , pp. 7
    • Guo, Y.1    Sheng, Q.2    Samuels, D.C.3    Lehmann, B.4    Bauer, J.A.5    Pietenpol, J.6    Shyr, Y.7
  • 18
    • 79952194317 scopus 로고    scopus 로고
    • Discovery and genotyping of genome structural polymorphism by sequencing on a population scale
    • Handsaker RE, Korn JM, Nemesh J, McCarroll SA. 2011. Discovery and genotyping of genome structural polymorphism by sequencing on a population scale. Nat Genet 43:269-276.
    • (2011) Nat Genet , vol.43 , pp. 269-276
    • Handsaker, R.E.1    Korn, J.M.2    Nemesh, J.3    McCarroll, S.A.4
  • 27
    • 62349130698 scopus 로고    scopus 로고
    • Ultrafast and memory-efficient alignment of short DNA sequences to the human genome
    • Langmead B, Trapnell C, Pop M, Salzberg SL. 2009. Ultrafast and memory-efficient alignment of short DNA sequences to the human genome. Genome Biol 10:R25.
    • (2009) Genome Biol , vol.10
    • Langmead, B.1    Trapnell, C.2    Pop, M.3    Salzberg, S.L.4
  • 28
    • 67649884743 scopus 로고    scopus 로고
    • Fast and accurate short read alignment with Burrows-Wheeler transform
    • Li H, Durbin R. 2009. Fast and accurate short read alignment with Burrows-Wheeler transform. Bioinformatics 25:1754-1760.
    • (2009) Bioinformatics , vol.25 , pp. 1754-1760
    • Li, H.1    Durbin, R.2
  • 30
    • 84890244872 scopus 로고    scopus 로고
    • Computational methods for detecting copy number variations in cancer genome using next generation sequencing: principles and challenges
    • Liu B, Morrison CD, Johnson CS, Trump DL, Qin M, Conroy JC, Wang J, Liu S. 2013. Computational methods for detecting copy number variations in cancer genome using next generation sequencing: principles and challenges. Oncotarget 4(11):1868-1881.
    • (2013) Oncotarget , vol.4 , Issue.11 , pp. 1868-1881
    • Liu, B.1    Morrison, C.D.2    Johnson, C.S.3    Trump, D.L.4    Qin, M.5    Conroy, J.C.6    Wang, J.7    Liu, S.8
  • 33
    • 70449704529 scopus 로고    scopus 로고
    • Computational methods for discovering structural variation with next-generation sequencing
    • Medvedev P, Stanciu M, Brudno M. 2009. Computational methods for discovering structural variation with next-generation sequencing. Nat Methods 6(11 Suppl):S13-S20.
    • (2009) Nat Methods , vol.6 , Issue.SUPPL. 11
    • Medvedev, P.1    Stanciu, M.2    Brudno, M.3
  • 42
    • 84878302825 scopus 로고    scopus 로고
    • FishingCNV: a graphical software package for detecting rare copy number variations in exome-sequencing data
    • Shi Y, Majewski J. 2013. FishingCNV: a graphical software package for detecting rare copy number variations in exome-sequencing data. Bioinformatics 29:1461-1462.
    • (2013) Bioinformatics , vol.29 , pp. 1461-1462
    • Shi, Y.1    Majewski, J.2
  • 43
    • 77949831756 scopus 로고    scopus 로고
    • Structural variation in the human genome and its role in disease
    • Stankiewicz P, Lupski JR. 2010. Structural variation in the human genome and its role in disease. Annu Rev Med 61:437-455.
    • (2010) Annu Rev Med , vol.61 , pp. 437-455
    • Stankiewicz, P.1    Lupski, J.R.2
  • 45
    • 84863970074 scopus 로고    scopus 로고
    • De novo mutations in human genetic disease
    • Veltman JA, Brunner HG. 2012. De novo mutations in human genetic disease. Nat Rev Genet 13:565-575.
    • (2012) Nat Rev Genet , vol.13 , pp. 565-575
    • Veltman, J.A.1    Brunner, H.G.2
  • 46
    • 84874776644 scopus 로고    scopus 로고
    • A survey of copy-number variation detection tools based on high-throughput sequencing data
    • Chapter 7:Unit7
    • Xi R, Lee S, Park PJ. 2012. A survey of copy-number variation detection tools based on high-throughput sequencing data. Curr Protoc Hum Genet Chapter 7:Unit7 19.
    • (2012) Curr Protoc Hum Genet , pp. 19
    • Xi, R.1    Lee, S.2    Park, P.J.3


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.