메뉴 건너뛰기




Volumn 51, Issue 4, 2005, Pages 431-457

Gene algebra from a genetic code algebraic structure

Author keywords

Gene algebra; Genetic code algebra; Molecular evolution process

Indexed keywords

GLOBIN; PROTEINASE;

EID: 26444542847     PISSN: 03036812     EISSN: 14321416     Source Type: Journal    
DOI: 10.1007/s00285-005-0332-8     Document Type: Article
Times cited : (35)

References (48)
  • 1
    • 0014581827 scopus 로고
    • The genetic code and error transmission
    • USA
    • Alf-Steinberger, C.: The genetic code and error transmission. Proc. Natl. Acad. Sci. USA, 64, 584-591 (1969)
    • (1969) Proc. Natl. Acad. Sci. , vol.64 , pp. 584-591
    • Alf-Steinberger, C.1
  • 2
    • 0030573814 scopus 로고    scopus 로고
    • A complementary circular code in the protein coding genes
    • Arques, D.G., Michel, C.J.: "A complementary circular code in the protein coding genes". J. Theor. Biol. 182, 45-58 (1996)
    • (1996) J. Theor. Biol. , vol.182 , pp. 45-58
    • Arques, D.G.1    Michel, C.J.2
  • 3
    • 37649027959 scopus 로고    scopus 로고
    • Symmetry scheme for amino acid codons
    • Balakrishnan, J.: Symmetry scheme for amino acid codons. Phys. Rev. E, 65, 021912-5 (2002)
    • (2002) Phys. Rev. E , vol.65 , pp. 021912-021915
    • Balakrishnan, J.1
  • 4
    • 0032477795 scopus 로고    scopus 로고
    • A supersymmetric model for the evolution of the genetic code
    • USA
    • Bashford, J.D., Tsohantjis, I., Jarvis, P.D.: A supersymmetric model for the evolution of the genetic code. Proc. Natl. Acad. Sci. USA 95, 987-992 (1998)
    • (1998) Proc. Natl. Acad. Sci. , vol.95 , pp. 987-992
    • Bashford, J.D.1    Tsohantjis, I.2    Jarvis, P.D.3
  • 5
    • 0033732744 scopus 로고    scopus 로고
    • The genetic code as a periodic table
    • Bashford, J.D., Jarvis P.D.: The genetic code as a periodic table. Biosystems 57, 147-161 (2000)
    • (2000) Biosystems , vol.57 , pp. 147-161
    • Bashford, J.D.1    Jarvis, P.D.2
  • 6
    • 0027944316 scopus 로고
    • The origin and evolution of the genetic code
    • Beland, P., Allen, T.F.: The origin and evolution of the genetic code. J Theor Biol. 170, 359-365 (1994)
    • (1994) J Theor Biol. , vol.170 , pp. 359-365
    • Beland, P.1    Allen, T.F.2
  • 7
    • 0018618823 scopus 로고
    • Group graph of the genetic code
    • Bertman, M.O., Jungck, J.R.: Group graph of the genetic code. J. Hered. 70, 379-384 (1979)
    • (1979) J. Hered. , vol.70 , pp. 379-384
    • Bertman, M.O.1    Jungck, J.R.2
  • 9
    • 0037460089 scopus 로고    scopus 로고
    • Block structure and stability of the genetic code
    • Chechetkin, V.R. "Block structure and stability of the genetic code". J. Theor. Biol. 222, 177-188 (2003)
    • (2003) J. Theor. Biol. , vol.222 , pp. 177-188
    • Chechetkin, V.R.1
  • 10
    • 0014378880 scopus 로고
    • The origin of the genetic code
    • Crick, F.H.C.: The origin of the genetic code. J. Mol. Biol. 38, 367-379 (1968)
    • (1968) J. Mol. Biol. , vol.38 , pp. 367-379
    • Crick, F.H.C.1
  • 11
    • 0033551151 scopus 로고    scopus 로고
    • Expression pattern and, surprisingly, gene length, shape codon usage in Caenorhabditis, Drosophila, and Arabidopsis
    • Duret, L., Mouchiroud, D.: Expression pattern and, surprisingly, gene length, shape codon usage in Caenorhabditis, Drosophila, and Arabidopsis. Proc Natl Acad Sci 96, 17-25 (1999)
    • (1999) Proc Natl Acad Sci , vol.96 , pp. 17-25
    • Duret, L.1    Mouchiroud, D.2
  • 12
    • 0014003909 scopus 로고
    • Role of the amino-acid "code" and of selection for conformation in the evolution of proteins
    • Epstein, C. J.: Role of the amino-acid "code" and of selection for conformation in the evolution of proteins. Nature 210, 25-28 (1966)
    • (1966) Nature , vol.210 , pp. 25-28
    • Epstein, C.J.1
  • 13
    • 0347029794 scopus 로고    scopus 로고
    • A crystal base for the genetic code
    • Frappat, L., Sciarrino A. and Sorba, P. "A crystal base for the genetic code" Phys. Lett. A250, 214-221 (1998)
    • (1998) Phys. Lett. , vol.A250 , pp. 214-221
    • Frappat, L.1    Sciarrino, A.2    Sorba, P.3
  • 14
    • 0031662136 scopus 로고    scopus 로고
    • The genetic code is one in a million
    • Freeland, S. J., Hurst, L. D.: The genetic code is one in a million. J. Mol. Evol. 47, 238-248 (1998)
    • (1998) J. Mol. Evol. , vol.47 , pp. 238-248
    • Freeland, S.J.1    Hurst, L.D.2
  • 16
    • 0001293390 scopus 로고
    • Lack of fidelity in the translation of ribopolynucleotides
    • USA
    • Friedman, S.M., Weinstein, I..B.: Lack of fidelity in the translation of ribopolynucleotides. Proc Natl Acad Sci USA 52, 988-996 (1964)
    • (1964) Proc Natl Acad Sci , vol.52 , pp. 988-996
    • Friedman, S.M.1    Weinstein, I.B.2
  • 17
    • 0141819051 scopus 로고    scopus 로고
    • Strong associations between gene function and codon usage
    • Fuglsang, A.: Strong associations between gene function and codon usage. APMIS 111, 843-847 (2003)
    • (2003) APMIS , vol.111 , pp. 843-847
    • Fuglsang, A.1
  • 18
    • 0035233646 scopus 로고    scopus 로고
    • Optimality of the genetic code with respect to protein stability and amino acid frequencies
    • research0049.1 -research0049.12
    • Gillis, D., Massar, S., Cerf, N.J., Rooman, M.: Optimality of the genetic code with respect to protein stability and amino acid frequencies. Genome Biology 2, research0049.1 -research0049.12 (2001)
    • (2001) Genome Biology , vol.2
    • Gillis, D.1    Massar, S.2    Cerf, N.J.3    Rooman, M.4
  • 19
    • 0016197604 scopus 로고
    • Amino Acid Difference Formula to Help Explain Protein Evolution
    • Grantham R.: Amino Acid Difference Formula to Help Explain Protein Evolution. Science, 185, 862-864 (1974)
    • (1974) Science , vol.185 , pp. 862-864
    • Grantham, R.1
  • 20
    • 0842307105 scopus 로고    scopus 로고
    • The relationship between synonymous codon usage and protein structure in Escherichia coli and Homo sapiens
    • Gu, W., Zhou, T., Ma, J., Sun, X., Lu, Z.: The relationship between synonymous codon usage and protein structure in Escherichia coli and Homo sapiens. Biosystems 73, 89-97 (2004)
    • (2004) Biosystems , vol.73 , pp. 89-97
    • Gu, W.1    Zhou, T.2    Ma, J.3    Sun, X.4    Lu, Z.5
  • 21
    • 0034708361 scopus 로고    scopus 로고
    • Studies on the relationships between synonymous codon usage and protein secondary structure
    • Gupta, S.K., Majumdar, S., Bhattacharya, K., Ghosh, T.C.: Studies on the relationships between synonymous codon usage and protein secondary structure. Biochem. Biophys. Res. Comm. 269, 692-696 (2000)
    • (2000) Biochem. Biophys. Res. Comm. , vol.269 , pp. 692-696
    • Gupta, S.K.1    Majumdar, S.2    Bhattacharya, K.3    Ghosh, T.C.4
  • 22
    • 3843151606 scopus 로고    scopus 로고
    • Genetic Code, Hamming Distance and Stochastic Matrices
    • He, M., Petoukhov, S.V., Ricci, P.E.: Genetic Code, Hamming Distance and Stochastic Matrices. Bull. Math. Biol. 66, 1405-1421 (2004)
    • (2004) Bull. Math. Biol. , vol.66 , pp. 1405-1421
    • He, M.1    Petoukhov, S.V.2    Ricci, P.E.3
  • 23
    • 0029784751 scopus 로고    scopus 로고
    • The hypercube structure of the genetic code explains conservative and non-conservative amino acid substitutions in vivo and in vitro
    • Jiménez-Montaño, M.A.: The hypercube structure of the genetic code explains conservative and non-conservative amino acid substitutions in vivo and in vitro. Biosystems 39, 117-125 (1996)
    • (1996) Biosystems , vol.39 , pp. 117-125
    • Jiménez-Montaño, M.A.1
  • 24
    • 0344146524 scopus 로고    scopus 로고
    • Protein Evolution Drives the Evolution of the Genetic Code and Vice Versa
    • Jiménez-Montaño, M.A.: Protein Evolution Drives the Evolution of the Genetic Code and Vice Versa. BioSystems 54, 47-64 (1999)
    • (1999) BioSystems , vol.54 , pp. 47-64
    • Jiménez-Montaño, M.A.1
  • 25
    • 0027452083 scopus 로고
    • Evolutionary changes in the genetic code
    • Jukes, T.H., Osawa, S.: Evolutionary changes in the genetic code. Comp Biochem. Physiol. B. 106, 489-494 (1993)
    • (1993) Comp Biochem. Physiol. B. , vol.106 , pp. 489-494
    • Jukes, T.H.1    Osawa, S.2
  • 26
    • 0018191721 scopus 로고
    • The genetic code as a periodic tables
    • Jungck, J.R.: "The genetic code as a periodic tables". J.Mol.Evol. 11, 211-224 (1978)
    • (1978) J.Mol.Evol. , vol.11 , pp. 211-224
    • Jungck, J.R.1
  • 27
    • 0035820188 scopus 로고    scopus 로고
    • Topological Nature of the Genetic Code
    • Karasev, V.A., Stefanov, V.E.: Topological Nature of the Genetic Code. J. Theor. Biol. 209, 303-317 (2001)
    • (2001) J. Theor. Biol. , vol.209 , pp. 303-317
    • Karasev, V.A.1    Stefanov, V.E.2
  • 28
    • 0008863560 scopus 로고
    • Some factors in the interpretation of protein denaturation
    • Kauzmann, W.: Some factors in the interpretation of protein denaturation. Advances in Protein Chemistry, Vol. 14, 1-63 (1959)
    • (1959) Advances in Protein Chemistry , vol.14 , pp. 1-63
    • Kauzmann, W.1
  • 30
    • 0034695669 scopus 로고    scopus 로고
    • Physico-chemical Constraints Connected with the Coding Properties of the Genetic System
    • Lehmann, J.: Physico-chemical Constraints Connected with the Coding Properties of the Genetic System. J. Theor. Biol. 202, 129-144 (2000)
    • (2000) J. Theor. Biol. , vol.202 , pp. 129-144
    • Lehmann, J.1
  • 31
    • 10644272391 scopus 로고    scopus 로고
    • Oxford University Press
    • Lewin, B.: Genes VIII. Oxford University Press. 2004
    • (2004) Genes VIII
    • Lewin, B.1
  • 32
    • 0029828233 scopus 로고    scopus 로고
    • Strategies for achieving high-level expression of genes in Escherichia coli
    • Makrides, S.C.: Strategies for achieving high-level expression of genes in Escherichia coli. Microbiol Rev 60, 512-538 (1996)
    • (1996) Microbiol Rev , vol.60 , pp. 512-538
    • Makrides, S.C.1
  • 33
    • 33845377127 scopus 로고
    • Estimation of effective interresidue contact energies from protein crystal structures: Quasi-chemical approximation
    • Miyazawa, S., Jernigan, R. L.: Estimation of effective interresidue contact energies from protein crystal structures: quasi-chemical approximation. Macromolecules, 18, 534-552 (1985)
    • (1985) Macromolecules , vol.18 , pp. 534-552
    • Miyazawa, S.1    Jernigan, R.L.2
  • 34
    • 0029919190 scopus 로고    scopus 로고
    • Residue-Residue Potentials with a Favorable Contact Pair Term and an Unfavorable High Packing Density Term, for Simulation and Threading
    • Miyazawa, S., Jemigan R.L.: Residue-Residue Potentials with a Favorable Contact Pair Term and an Unfavorable High Packing Density Term, for Simulation and Threading. J. Mol. Biol. 256, 623-644 (1996)
    • (1996) J. Mol. Biol. , vol.256 , pp. 623-644
    • Miyazawa, S.1    Jemigan, R.L.2
  • 35
    • 0342614926 scopus 로고    scopus 로고
    • Codon usage tabulated from international DNA sequence database: Status for the year 2000
    • Nakamura Y, Gojobori T, and Ikemura T. Codon usage tabulated from international DNA sequence database: status for the year 2000. Nucleic Acids Research 28, 292 (2000)
    • (2000) Nucleic Acids Research , vol.28 , pp. 292
    • Nakamura, Y.1    Gojobori, T.2    Ikemura, T.3
  • 36
    • 0032493780 scopus 로고    scopus 로고
    • Specific correlations between relative synonymous codon usage and protein secondary structure
    • Oresic. M., Shalloway, D.: Specific correlations between relative synonymous codon usage and protein secondary structure. J Mol. Biol. 281, 31-48 (1998)
    • (1998) J Mol. Biol. , vol.281 , pp. 31-48
    • Oresic, M.1    Shalloway, D.2
  • 37
    • 0026574207 scopus 로고
    • Recent evidence for evolution of the genetic code
    • Osawa, S., Jukes, T.H., Watanabe, K., Muto, A.: Recent evidence for evolution of the genetic code. Microbiol Rev. 56, 229-264 (1992)
    • (1992) Microbiol Rev. , vol.56 , pp. 229-264
    • Osawa, S.1    Jukes, T.H.2    Watanabe, K.3    Muto, A.4
  • 38
    • 0024722501 scopus 로고
    • Errors and alternatives in reading the universal genetic code
    • Parker, J.: Errors and alternatives in reading the universal genetic code. Microbiol Rev. 53, 273-298 (1989)
    • (1989) Microbiol Rev. , vol.53 , pp. 273-298
    • Parker, J.1
  • 39
    • 26444554041 scopus 로고
    • Akadémiai Kiadó, Budapest
    • Redéi, L.: Algebra, Vol. 1. Akadémiai Kiadó, Budapest (1967)
    • (1967) Algebra , vol.1
    • Redéi, L.1
  • 42
    • 13244288701 scopus 로고    scopus 로고
    • A Genetic Code Boolean Structure. I. The Meaning of Boolean Deductions
    • Sánchez, R., Morgado, E., Grau, R.: A Genetic Code Boolean Structure. I. The Meaning of Boolean Deductions. Bull. Math. Biol. 67, 1-14 (2005)
    • (2005) Bull. Math. Biol. , vol.67 , pp. 1-14
    • Sánchez, R.1    Morgado, E.2    Grau, R.3
  • 43
    • 0002591472 scopus 로고
    • Über die Automorphismen Einer Endlichen Abelichen Gruppe
    • Shoda K.: Über die Automorphismen Einer Endlichen Abelichen Gruppe. Math. Ann. 100, 674-686 (1928)
    • (1928) Math. Ann. , vol.100 , pp. 674-686
    • Shoda, K.1
  • 44
    • 0028862303 scopus 로고
    • Chou-Fasman conformational amino acid parameters and the genetic code
    • Siemion, I.Z., Siemion, P.J., Krajewski, K.: Chou-Fasman conformational amino acid parameters and the genetic code. Biosystems 36, 231-238 (1995)
    • (1995) Biosystems , vol.36 , pp. 231-238
    • Siemion, I.Z.1    Siemion, P.J.2    Krajewski, K.3
  • 45
    • 0031697801 scopus 로고    scopus 로고
    • The relationship between synonymous codon usage and protein structure
    • Tao, X., Dafu, D.: The relationship between synonymous codon usage and protein structure. FEBS Lett 434, 93-96 (1998)
    • (1998) FEBS Lett , vol.434 , pp. 93-96
    • Tao, X.1    Dafu, D.2
  • 46
    • 26444443529 scopus 로고
    • Editorial MIR, Moscú, Capítulo
    • Volkenshtein, M.V.: Biofísica. Editorial MIR, Moscú, Capítulo 17, 621-639 (1985)
    • (1985) Biofísica , vol.17 , pp. 621-639
    • Volkenshtein, M.V.1
  • 47
    • 0013824051 scopus 로고
    • On the evolution of the genetic code
    • USA
    • Woese, C.R.: On the evolution of the genetic code. Proc Natl Acad Sci USA, 54, 1546-1552 (1965)
    • (1965) Proc Natl Acad Sci , vol.54 , pp. 1546-1552
    • Woese, C.R.1
  • 48
    • 0001050687 scopus 로고    scopus 로고
    • Adaptive molecular evolution
    • (Balding, M., Bishop, M., Cannings, C., eds), Wiley:London
    • Yang, Z.: Adaptive molecular evolution. In Handbook of statistical genetics, (Balding, M., Bishop, M., Cannings, C., eds), Wiley:London, pp. 327-350 (2000)
    • (2000) Handbook of Statistical Genetics , pp. 327-350
    • Yang, Z.1


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.