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Volumn 4, Issue 12, 2014, Pages 2545-2552

Correcting for sequencing error in maximum likelihood phylogeny inference

Author keywords

Maximum likelihood; Phylogeny inference; Sequencing error

Indexed keywords

ARTICLE; BAYES THEOREM; DNA POLYMORPHISM; DNA SEQUENCE; GENE SEQUENCE; MAXIMUM LIKELIHOOD METHOD; MAXIMUM LIKELIHOOD PHYLOGENY INFERENCE; SEQUENCING ERROR CORRECTION; SIMULATION; SINGLE NUCLEOTIDE POLYMORPHISM; STATISTICAL ANALYSIS; ANIMAL; BIOLOGICAL MODEL; BIOLOGY; COMPUTER PROGRAM; HUMAN; PHYLOGENY; PROBABILITY; PROCEDURES; STATISTICAL MODEL;

EID: 84964312527     PISSN: None     EISSN: 21601836     Source Type: Journal    
DOI: 10.1534/g3.114.014365     Document Type: Article
Times cited : (8)

References (16)
  • 1
    • 0022422660 scopus 로고
    • Nomenclature for incompletely specified bases in nucleic acid sequences: recommendations 1984
    • Cornish-Bowden, A., 1985 Nomenclature for incompletely specified bases in nucleic acid sequences: recommendations 1984. Nucleic Acids Res. 13: 3021-3030.
    • (1985) Nucleic Acids Res , vol.13 , pp. 3021-3030
    • Cornish-Bowden, A.1
  • 2
    • 84928076037 scopus 로고
    • Phylogeny as a central principle in taxonomy: phylogenetic definitions of taxon names
    • de Queiroz, K., and J. Gauthier, 1990 Phylogeny as a central principle in taxonomy: phylogenetic definitions of taxon names. Syst. Biol. 39: 307-322.
    • (1990) Syst. Biol. , vol.39 , pp. 307-322
    • de Queiroz, K.1    Gauthier, J.2
  • 4
    • 0031978181 scopus 로고    scopus 로고
    • Base-calling of automated sequencer traces using Phred II. Error probabilities
    • Ewing, B., and P. Green, 1998 Base-calling of automated sequencer traces using Phred. II. Error probabilities. Genome Res. 8: 186-194.
    • (1998) Genome Res , vol.8 , pp. 186-194
    • Ewing, B.1    Green, P.2
  • 5
    • 0019797407 scopus 로고
    • Evolutionary trees from DNA sequences: a maximum likelihood approach
    • Felsenstein, J., 1981 Evolutionary trees from DNA sequences: a maximum likelihood approach. J. Mol. Evol. 17: 368-376.
    • (1981) J. Mol. Evol. , vol.17 , pp. 368-376
    • Felsenstein, J.1
  • 7
    • 0003437302 scopus 로고    scopus 로고
    • version 3.6. Distributed by the author. Department of Genome Sciences, University of Washington, Seattle
    • Felsenstein, J., 2005 PHYLIP (Phylogeny Inference Package) version 3.6. Distributed by the author. Department of Genome Sciences, University of Washington, Seattle.
    • (2005) PHYLIP (Phylogeny Inference Package)
    • Felsenstein, J.1
  • 8
    • 84908026102 scopus 로고    scopus 로고
    • Accessed: October 27, 2014
    • Glenn, T. C., 2014. 2014 NGS Field Guide. Available at: www.molecularecologist.com/next-gen-table-3c-2014/. Accessed: October 27, 2014.
    • (2014) 2014 NGS Field Guide
    • Glenn, T.C.1
  • 9
    • 80052530006 scopus 로고    scopus 로고
    • Evaluation of methods for de novo genome assembly from high-throughput sequencing reads reveals dependencies that affect the quality of the results
    • Haiminen, N., D. N. Kuhn, L. Parida, and I. Rigoutsos, 2011 Evaluation of methods for de novo genome assembly from high-throughput sequencing reads reveals dependencies that affect the quality of the results. PLoS One 9: e24182.
    • (2011) PLoS One , vol.9
    • Haiminen, N.1    Kuhn, D.N.2    Parida, L.3    Rigoutsos, I.4
  • 10
    • 58349112353 scopus 로고    scopus 로고
    • Coalescent genealogy samplers: windows into population history
    • Kuhner, M. K., 2009 Coalescent genealogy samplers: windows into population history. Trends Ecol. Evol. 24: 86-93.
    • (2009) Trends Ecol. Evol. , vol.24 , pp. 86-93
    • Kuhner, M.K.1
  • 11
    • 84927675668 scopus 로고    scopus 로고
    • Practical performance of tree comparison metrics
    • Kuhner, M. K., and J. Yamato, 2014 Practical performance of tree comparison metrics. Sys Biol doi: 10.1093/sysbio/syu085.
    • (2014) Sys Biol
    • Kuhner, M.K.1    Yamato, J.2
  • 12
    • 18244385496 scopus 로고    scopus 로고
    • Critical review of host specificity and its coevolutionary implications in the fig/fig wasp mutualism
    • Machado, C. A., N. Robbins, M. T. P. Gilbert, and E. A. Herre, 2005 Critical review of host specificity and its coevolutionary implications in the fig/fig wasp mutualism. Proc. Natl. Acad. Sci. USA 102(Suppl 1): 6558-6565.
    • (2005) Proc. Natl. Acad. Sci. USA , vol.102 , pp. 6558-6565
    • Machado, C.A.1    Robbins, N.2    Gilbert, M.T.P.3    Herre, E.A.4
  • 13
    • 84876396569 scopus 로고    scopus 로고
    • Correcting coalescent analyses for panel-based SNP ascertainment
    • McGill, J. R., E. A. Walkup, and M. K. Kuhner, 2013 Correcting coalescent analyses for panel-based SNP ascertainment. Genetics 193: 1185-1196.
    • (2013) Genetics , vol.193 , pp. 1185-1196
    • McGill, J.R.1    Walkup, E.A.2    Kuhner, M.K.3
  • 15
    • 0019424782 scopus 로고
    • Comparison of phylogenetic trees
    • Robinson, D. F., and L. R. Foulds, 1981 Comparison of phylogenetic trees. Math. Biosci. 53: 131-147.
    • (1981) Math. Biosci. , vol.53 , pp. 131-147
    • Robinson, D.F.1    Foulds, L.R.2
  • 16
    • 33645030825 scopus 로고    scopus 로고
    • Molecular dating of phylogenetic trees: a brief review of current methods that estimate divergence times
    • Rutschmann, F., 2006 Molecular dating of phylogenetic trees: a brief review of current methods that estimate divergence times. Divers. Distrib. 12: 35-48.
    • (2006) Divers. Distrib. , vol.12 , pp. 35-48
    • Rutschmann, F.1


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.