CNVDetector: locating copy number variations using array CGH data

被引:10
作者
Chen, Peng-An [1 ]
Liu, Hsiao-Fei [1 ]
Chao, Kun-Mao [1 ,2 ,3 ]
机构
[1] Natl Taiwan Univ, Dept Comp Sci & Informat Engn, Taipei 10764, Taiwan
[2] Natl Taiwan Univ, Grad Inst Biomed Elect & Bioinformat, Taipei 10764, Taiwan
[3] Natl Taiwan Univ, Grad Inst Networking & Multimedia, Taipei 10764, Taiwan
关键词
D O I
10.1093/bioinformatics/btn517
中图分类号
Q5 [生物化学];
学科分类号
071010 ; 081704 ;
摘要
CNVDetector is a program for locating copy number variations (CNVs) in a single genome. CNVDetector has several merits: (i) it can deal with the array comparative genomic hybridization data even if the noise is not normally distributed; (ii) it has a linear time kernel; (iii) its parameters can be easily selected; (iv) it evaluates the statistical significance for each CNV calling.
引用
收藏
页码:2773 / 2775
页数:3
相关论文
共 50 条
  • [22] Confidence masks for genome DNA copy number variations in applications to HR-CGH array measurements
    Muñoz-Minjares, Jorge
    Cabal-Aragón, Jesús
    Shmaliy, Yuriy S.
    Biomedical Signal Processing and Control, 2014, 13 : 337 - 344
  • [23] Gene copy number analysis in malignant pleural mesothelioma using oligonucleotide array CGH
    Lindholm, P. M.
    Salmenkivi, K.
    Vauhkonen, H.
    Nicholson, A. G.
    Anttila, S.
    Kinnula, V. L.
    Knuutila, S.
    CYTOGENETIC AND GENOME RESEARCH, 2007, 119 (1-2) : 46 - 52
  • [24] Classification and prognosis of sarcomas using DNA copy number cranges identified by array CGH
    Kresse, Stine H.
    Barragan-Polania, Ana H.
    Bjerkehagen, Bodil
    Ohnstad, Hege O.
    Namlos, Heidi M.
    Skarn, Magne
    Myklebost, Ola
    Meza-Zepeda, Leonardo A.
    CELLULAR ONCOLOGY, 2007, 29 (02) : 112 - 112
  • [25] Interpretation of array CGH data: adding to the growing list of copy number variants in healthy subjects
    Blakemore, Alexandra
    de Smith, A. J.
    Tsalenko, A.
    Sampas, N.
    Scheffer, A.
    Yamada, A.
    Tsang, P.
    Ben-Dor, A.
    Yakhini, Z.
    Ellis, R.
    Bruhn, L.
    Laderman, S.
    Froguel, P.
    JOURNAL OF MEDICAL GENETICS, 2007, 44 : S31 - S31
  • [26] Bayesian Random Segmentation Models to Identify Shared Copy Number Aberrations for Array CGH Data
    Baladandayuthapani, Veerabhadran
    Ji, Yuan
    Talluri, Rajesh
    Nieto-Barajas, Luis E.
    Morris, Jeffrey S.
    JOURNAL OF THE AMERICAN STATISTICAL ASSOCIATION, 2010, 105 (492) : 1358 - 1375
  • [27] Estimating Shared Copy Number Aberrations for Array CGH Data: The Linear-Median Method
    Lin, Y. -X.
    Baladandayuthapani, V.
    Bonato, V.
    Do, K. -A.
    CANCER INFORMATICS, 2010, 9 : 229 - +
  • [28] CGH plus SNP Microarrays for Simultaneous Detection of Copy Number and Copy Neutral Variations
    Costa, P.
    Curry, B.
    Peter, B.
    Anderson, P.
    Sampas, N.
    Giles, S.
    Ashutosh, A.
    Ghosh, J.
    Roberts, D.
    De Witte, A.
    JOURNAL OF MOLECULAR DIAGNOSTICS, 2010, 12 (06) : 858 - 858
  • [29] Investigation of chromosomal anomalies and copy number variations in children diagnosed with autism spectrum disorder by array CGH method
    Kilicaslan, Fethiye
    Oz, Ozlem
    Mutlu, Mehmet Burak
    INTERNATIONAL JOURNAL OF DEVELOPMENTAL NEUROSCIENCE, 2025, 85 (01)
  • [30] Characteristics of Highly Polymorphic Segmental Copy-Number Variations Observed in Japanese by BAC-Array-CGH
    Takahashi, Norio
    Satoh, Yasunari
    Sasaki, Keiko
    Shimoichi, Yuko
    Sugita, Keiko
    Katayama, Hiroaki
    JOURNAL OF BIOMEDICINE AND BIOTECHNOLOGY, 2011,