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Volumn 63, Issue 4, 2003, Pages 347-363

Estimating change rates of genetic markers using serial samples: Applications to the transposon IS6110 in Mycobacterium tuberculosis

Author keywords

Birth and death process; Insertion sequence; Mutation rate; Pathogen; Pulsed field gel electrophoresis; Substitution rate; Transposition

Indexed keywords

EPIDEMIOLOGY; GENETIC MARKER; HOST-PATHOGEN INTERACTION; MUTATION; POPULATION GENETICS;

EID: 0141656318     PISSN: 00405809     EISSN: None     Source Type: Journal    
DOI: 10.1016/S0040-5809(03)00010-8     Document Type: Article
Times cited : (27)

References (39)
  • 3
    • 0345958829 scopus 로고
    • Design problems for the pure birth process
    • Becker G., Kersting G. Design problems for the pure birth process. Adv. Appl. Probab. 15:1983;255-273.
    • (1983) Adv. Appl. Probab. , vol.15 , pp. 255-273
    • Becker, G.1    Kersting, G.2
  • 4
    • 85056007239 scopus 로고
    • The behaviour of an estimator for a simple birth and death process
    • Darwin J.H. The behaviour of an estimator for a simple birth and death process. Biometrika. 43:1956;23-31.
    • (1956) Biometrika , vol.43 , pp. 23-31
    • Darwin, J.H.1
  • 6
    • 0034462389 scopus 로고    scopus 로고
    • Genetic heterogeneity in Mycobacterium tuberculosis isolates reflected in IS6110 restriction fragment length polymorphism patterns as low-intensity bands
    • de Boer A.S., Kremer K., Borgdorff M.W., de Haas P.E.W., Heersma H.F., van Soolingen D. Genetic heterogeneity in Mycobacterium tuberculosis isolates reflected in IS6110 restriction fragment length polymorphism patterns as low-intensity bands. J. Clin. Microbiol. 38:2000;4478-4484.
    • (2000) J. Clin. Microbiol. , vol.38 , pp. 4478-4484
    • De Boer, A.S.1    Kremer, K.2    Borgdorff, M.W.3    De Haas, P.E.W.4    Heersma, H.F.5    Van Soolingen, D.6
  • 7
    • 0036021407 scopus 로고    scopus 로고
    • Estimating mutation parameters, population history and genealogy simultaneously from temporally spaced sequence data
    • Drummond A.J., Nicholls G.K., Rodrigo A.G., Solomon W. Estimating mutation parameters, population history and genealogy simultaneously from temporally spaced sequence data. Genetics. 161:2002;1307-1320.
    • (2002) Genetics , vol.161 , pp. 1307-1320
    • Drummond, A.J.1    Nicholls, G.K.2    Rodrigo, A.G.3    Solomon, W.4
  • 9
    • 0035065394 scopus 로고    scopus 로고
    • Estimating mutation rate and generation time from longitudinal samples of DNA sequences
    • Fu Y.-X. Estimating mutation rate and generation time from longitudinal samples of DNA sequences. Mol. Biol. Evol. 18:2001;620-626.
    • (2001) Mol. Biol. Evol. , vol.18 , pp. 620-626
    • Fu, Y.-X.1
  • 11
    • 0030940879 scopus 로고    scopus 로고
    • Estimating Y chromosome specific microsatellite mutation frequencies using deep rooting pedigrees
    • Heyer E., Puymirat J., Dieltjes P., Bakker E., de Knijff P. Estimating Y chromosome specific microsatellite mutation frequencies using deep rooting pedigrees. Hum. Mol. Genet. 6:1997;799-803.
    • (1997) Hum. Mol. Genet. , vol.6 , pp. 799-803
    • Heyer, E.1    Puymirat, J.2    Dieltjes, P.3    Bakker, E.4    De Knijff, P.5
  • 13
    • 0000732090 scopus 로고
    • Evolution of protein molecules
    • H.N. Munro. New York: Academic Press
    • Jukes T.H., Cantor C.R. Evolution of protein molecules. Munro H.N. Mammalian Protein Metabolism. 1969;21-132 Academic Press, New York.
    • (1969) Mammalian Protein Metabolism , pp. 21-132
    • Jukes, T.H.1    Cantor, C.R.2
  • 14
    • 0015959137 scopus 로고
    • Estimation in the birth process
    • Keiding N. Estimation in the birth process. Biometrika. 61:1974;71-80.
    • (1974) Biometrika , vol.61 , pp. 71-80
    • Keiding, N.1
  • 15
    • 0000231623 scopus 로고
    • Maximum likelihood estimation in the birth-and-death process
    • Keiding N. Maximum likelihood estimation in the birth-and-death process. Ann. Stat. 3:1975;363-372.
    • (1975) Ann. Stat. , vol.3 , pp. 363-372
    • Keiding, N.1
  • 17
    • 0001697963 scopus 로고
    • Stochastic processes and population growth
    • Kendall D.G. Stochastic processes and population growth. J. R. Statist. Soc. Ser. B. 11:1949;230-264.
    • (1949) J. R. Statist. Soc. Ser. B , vol.11 , pp. 230-264
    • Kendall, D.G.1
  • 18
    • 0035194085 scopus 로고    scopus 로고
    • Improved inference of mutation rates: I. An integral representation for the Luria-Delbrück distribution
    • Kepler T.B., Oprea M. Improved inference of mutation rates. I. An integral representation for the Luria-Delbrück distribution Theor. Popul. Biol. 59:2001;41-48.
    • (2001) Theor. Popul. Biol. , vol.59 , pp. 41-48
    • Kepler, T.B.1    Oprea, M.2
  • 19
    • 0014421064 scopus 로고
    • Evolutionary rate at the molecular level
    • Kimura M. Evolutionary rate at the molecular level. Nature. 217:1968;624-626.
    • (1968) Nature , vol.217 , pp. 624-626
    • Kimura, M.1
  • 23
    • 0001641514 scopus 로고
    • Mutations of bacteria from virus sensitivity to virus resistance
    • Luria S., Delbrück M. Mutations of bacteria from virus sensitivity to virus resistance. Genetics. 28:1943;491-511.
    • (1943) Genetics , vol.28 , pp. 491-511
    • Luria, S.1    Delbrück, M.2
  • 24
    • 0008377728 scopus 로고
    • Spontaneous mutation rates at enzyme loci in Drosophila melanogaster
    • Mukai T., Cockerham C.C. Spontaneous mutation rates at enzyme loci in Drosophila melanogaster. Proc. Natl Acad. Sci. USA. 74:1977;2514-2517.
    • (1977) Proc. Natl Acad. Sci. USA , vol.74 , pp. 2514-2517
    • Mukai, T.1    Cockerham, C.C.2
  • 25
    • 0032927421 scopus 로고    scopus 로고
    • Stability of Mycobacterium tuberculosis IS6110 restriction fragment length polymorphism patterns and spoligotypes determined by analyzing serial isolates from patients with drug-resistant tuberculosis
    • Niemann S., Richter E., Rüsch-Gerdes S. Stability of Mycobacterium tuberculosis IS6110 restriction fragment length polymorphism patterns and spoligotypes determined by analyzing serial isolates from patients with drug-resistant tuberculosis. J. Clin. Microbiol. 37:1999;409-412.
    • (1999) J. Clin. Microbiol. , vol.37 , pp. 409-412
    • Niemann, S.1    Richter, E.2    Rüsch-Gerdes, S.3
  • 26
    • 84971152509 scopus 로고
    • Some further results on the birth-and-death process and its integral
    • Puri P.S. Some further results on the birth-and-death process and its integral. Proc. Cambridge Philos. Soc. 64:1968;141-154.
    • (1968) Proc. Cambridge Philos. Soc. , vol.64 , pp. 141-154
    • Puri, P.S.1
  • 27
    • 84990526415 scopus 로고
    • On estimating the parameters of a birth-death process
    • Reynolds J.F. On estimating the parameters of a birth-death process. Aust. J. Stat. 15:1973;35-43.
    • (1973) Aust. J. Stat. , vol.15 , pp. 35-43
    • Reynolds, J.F.1
  • 29
    • 0002667169 scopus 로고    scopus 로고
    • Coalescent approaches to HIV population genetics
    • K.A. Crandall. Baltimore: Johns Hopkins University Press
    • Rodrigo A.G., Felsenstein J. Coalescent approaches to HIV population genetics. Crandall K.A. The Evolution of HIV. 1999;233-272 Johns Hopkins University Press, Baltimore.
    • (1999) The Evolution of HIV , pp. 233-272
    • Rodrigo, A.G.1    Felsenstein, J.2
  • 30
    • 0036245438 scopus 로고    scopus 로고
    • Genealogical trees, coalescent theory and the analysis of genetic polymorphisms
    • Rosenberg N.A., Nordborg M. Genealogical trees, coalescent theory and the analysis of genetic polymorphisms. Nat. Rev. Genet. 3:2002;380-390.
    • (2002) Nat. Rev. Genet. , vol.3 , pp. 380-390
    • Rosenberg, N.A.1    Nordborg, M.2
  • 31
    • 0022763925 scopus 로고
    • Distribution of transposable elements in prokaryotes
    • Sawyer S., Hartl D. Distribution of transposable elements in prokaryotes. Theor. Popul. Biol. 30:1986;1-16.
    • (1986) Theor. Popul. Biol. , vol.30 , pp. 1-16
    • Sawyer, S.1    Hartl, D.2
  • 33
    • 0035974982 scopus 로고    scopus 로고
    • Optimal estimation of transposition rates of insertion sequences for molecular epidemiology
    • Tanaka M.M., Rosenberg N.A. Optimal estimation of transposition rates of insertion sequences for molecular epidemiology. Stat. Med. 20:2001;2409-2420.
    • (2001) Stat. Med. , vol.20 , pp. 2409-2420
    • Tanaka, M.M.1    Rosenberg, N.A.2
  • 34
    • 0034724444 scopus 로고    scopus 로고
    • The dynamics of repeated elements: Applications to the epidemiology of tuberculosis
    • Tanaka M.M., Small P.M., Salamon H., Feldman M.W. The dynamics of repeated elements. applications to the epidemiology of tuberculosis Proc. Natl Acad. Sci. USA. 97:2000;3532-3537.
    • (2000) Proc. Natl Acad. Sci. USA , vol.97 , pp. 3532-3537
    • Tanaka, M.M.1    Small, P.M.2    Salamon, H.3    Feldman, M.W.4
  • 35
    • 0029134774 scopus 로고
    • Interpreting chromosomal DNA restriction patterns produced by pulsed-field gel electrophoresis: Criteria for bacterial strain typing
    • Tenover F.C., Arbeit R.D., Goering R.V., Mickelsen P.A., Murray B.E., Persing D.H., Swaminathan B. Interpreting chromosomal DNA restriction patterns produced by pulsed-field gel electrophoresis. criteria for bacterial strain typing J. Clin. Microbiol. 33:1995;2233-2239.
    • (1995) J. Clin. Microbiol. , vol.33 , pp. 2233-2239
    • Tenover, F.C.1    Arbeit, R.D.2    Goering, R.V.3    Mickelsen, P.A.4    Murray, B.E.5    Persing, D.H.6    Swaminathan, B.7
  • 38
    • 0343717100 scopus 로고
    • Substitution times for mutant nucleotides
    • Watterson G.A. Substitution times for mutant nucleotides. J. Appl. Probab. 19a:1982;59-70.
    • (1982) J. Appl. Probab. , vol.19 , pp. 59-70
    • Watterson, G.A.1


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.