메뉴 건너뛰기




Volumn 42, Issue 5, 2012, Pages 556-563

Application of 2D graphic representation of protein sequence based on Huffman tree method

Author keywords

Escherichia coli; Graphic representation; Huffman tree; Protein sequence; Sequence analysis

Indexed keywords

2D GRAPHICS; COMPLETE GENOMES; GRAPHIC REPRESENTATION; HUFFMAN TREES; PROTEIN SEQUENCE; PROTEIN SEQUENCES; SEQUENCE ANALYSIS; STATISTICAL NUMBERS;

EID: 84862820743     PISSN: 00104825     EISSN: 18790534     Source Type: Journal    
DOI: 10.1016/j.compbiomed.2012.01.011     Document Type: Article
Times cited : (26)

References (35)
  • 1
    • 79951518208 scopus 로고    scopus 로고
    • Some remarks on protein attribute prediction and pseudo amino acid composition (50th Anniversary Year Review)
    • Chou K.C. Some remarks on protein attribute prediction and pseudo amino acid composition (50th Anniversary Year Review). J. Theor. Biol. 2011, 273(1):236-247.
    • (2011) J. Theor. Biol. , vol.273 , Issue.1 , pp. 236-247
    • Chou, K.C.1
  • 2
    • 0020659327 scopus 로고
    • H curves, a novel method of representation of nucleotide series especially suited for long DNA sequences
    • Hamori E., Ruskin J. H curves, a novel method of representation of nucleotide series especially suited for long DNA sequences. J. Biol. Chem. 1983, 258:1318-1327.
    • (1983) J. Biol. Chem. , vol.258 , pp. 1318-1327
    • Hamori, E.1    Ruskin, J.2
  • 3
    • 0024340861 scopus 로고
    • Graphic representation of long DNA sequences by the method of H curves-current results and future aspects
    • Hamori E. Graphic representation of long DNA sequences by the method of H curves-current results and future aspects. BioTechniques 1989, 7:710-720.
    • (1989) BioTechniques , vol.7 , pp. 710-720
    • Hamori, E.1
  • 4
    • 0025340372 scopus 로고
    • Chaos game representation of gene structure
    • Jeffrey H.J. Chaos game representation of gene structure. Nucleic Acids Res. 1990, 18:2163-2170.
    • (1990) Nucleic Acids Res. , vol.18 , pp. 2163-2170
    • Jeffrey, H.J.1
  • 5
    • 0022592245 scopus 로고
    • A simple way to look at DNA
    • Gates M.A. A simple way to look at DNA. J. Theor. Biol. 1986, 119:319-328.
    • (1986) J. Theor. Biol. , vol.119 , pp. 319-328
    • Gates, M.A.1
  • 6
    • 0000347441 scopus 로고
    • A new graphical representation and analysis of DNA sequence structure: I. Methodology and application to globin genes
    • Nandy A. A new graphical representation and analysis of DNA sequence structure: I. Methodology and application to globin genes. Curr. Sci. 1994, 66:309-314.
    • (1994) Curr. Sci. , vol.66 , pp. 309-314
    • Nandy, A.1
  • 7
    • 0028889673 scopus 로고
    • Random walk and gap plots of DNA sequences
    • Leong P.M., Mogenthaler S. Random walk and gap plots of DNA sequences. Comput. Appl. Biosci. 1995, 12:503-511.
    • (1995) Comput. Appl. Biosci. , vol.12 , pp. 503-511
    • Leong, P.M.1    Mogenthaler, S.2
  • 8
    • 77955500711 scopus 로고    scopus 로고
    • Classification studies based on a spectral representation of DNA
    • Bielinska-Waz D., Subramaniam S. Classification studies based on a spectral representation of DNA. J. Theor. Biol. 2010, 266(4):667-674.
    • (2010) J. Theor. Biol. , vol.266 , Issue.4 , pp. 667-674
    • Bielinska-Waz, D.1    Subramaniam, S.2
  • 9
    • 72949106535 scopus 로고    scopus 로고
    • Four-component spectral representation of DNA sequences
    • Bielinska-Waz D. Four-component spectral representation of DNA sequences. J. Math. Chem. 2010, 47(1):41-51.
    • (2010) J. Math. Chem. , vol.47 , Issue.1 , pp. 41-51
    • Bielinska-Waz, D.1
  • 10
    • 0034266159 scopus 로고    scopus 로고
    • On 3-D graphic representation of DNA primary sequence and their numerical characterization
    • Randić M., Vračko M., Nandy A., Basak S.C. On 3-D graphic representation of DNA primary sequence and their numerical characterization. J. Chem. Inf. Comput. Sci. 2000, 40(5):1235-1244.
    • (2000) J. Chem. Inf. Comput. Sci. , vol.40 , Issue.5 , pp. 1235-1244
    • Randić, M.1    Vračko, M.2    Nandy, A.3    Basak, S.C.4
  • 11
    • 0037435485 scopus 로고    scopus 로고
    • Novel 2-D graphic representation of DNA sequences and their numerical characterization
    • Randić M., Vračko M., Nella L., Dejan P. Novel 2-D graphic representation of DNA sequences and their numerical characterization. Chem. Phys. Lett. 2003, 368:1-6.
    • (2003) Chem. Phys. Lett. , vol.368 , pp. 1-6
    • Randić, M.1    Vračko, M.2    Nella, L.3    Dejan, P.4
  • 12
    • 41749104182 scopus 로고    scopus 로고
    • Another look at the chaos-game representation of DNA
    • Randić M. Another look at the chaos-game representation of DNA. Chem. Phys. Lett. 2008, 456:84-88.
    • (2008) Chem. Phys. Lett. , vol.456 , pp. 84-88
    • Randić, M.1
  • 13
    • 38549146281 scopus 로고    scopus 로고
    • On representation of DNA by line distance matrix
    • Randić M., Zupan J., Pisanski T. On representation of DNA by line distance matrix. J. Math. Chem. 2008, 43(2):674-692.
    • (2008) J. Math. Chem. , vol.43 , Issue.2 , pp. 674-692
    • Randić, M.1    Zupan, J.2    Pisanski, T.3
  • 14
    • 33845362256 scopus 로고    scopus 로고
    • Characterization of complex biological systems by matrix invariants
    • Jaklic G., Pisanski T., Randić M. Characterization of complex biological systems by matrix invariants. J. Comput. Biol. 2006, 13(9):1558-1564.
    • (2006) J. Comput. Biol. , vol.13 , Issue.9 , pp. 1558-1564
    • Jaklic, G.1    Pisanski, T.2    Randić, M.3
  • 15
    • 47349096545 scopus 로고    scopus 로고
    • Representation of proteins as walks in 20-D space
    • Novic M., Randić M. Representation of proteins as walks in 20-D space. SAR QSAR Environ. Res. 2008, 19(3-4):317-337.
    • (2008) SAR QSAR Environ. Res. , vol.19 , Issue.3-4 , pp. 317-337
    • Novic, M.1    Randić, M.2
  • 16
    • 34347358494 scopus 로고    scopus 로고
    • PN-curve A 3D graphic representation of DNA sequences and their numerical characterization
    • Qi Z.H., Fan T.R., PN-curve A. 3D graphic representation of DNA sequences and their numerical characterization. Chem. Phys. Lett. 2007, 442:434-440.
    • (2007) Chem. Phys. Lett. , vol.442 , pp. 434-440
    • Qi, Z.H.1    Fan, T.R.2
  • 17
    • 36249019849 scopus 로고    scopus 로고
    • New 3D graphic representation of DNA sequence based on dual nucleotides
    • Qi X.Q., Wen J., Qi Z.H. New 3D graphic representation of DNA sequence based on dual nucleotides. J. Theor. Biol. 2007, 249:681-690.
    • (2007) J. Theor. Biol. , vol.249 , pp. 681-690
    • Qi, X.Q.1    Wen, J.2    Qi, Z.H.3
  • 18
    • 34247869892 scopus 로고    scopus 로고
    • Novel 2D graphic representation of DNA sequence based on dual nucleotides
    • Qi Z.H., Qi X.Q. Novel 2D graphic representation of DNA sequence based on dual nucleotides. Chem. Phys. Lett. 2007, 440:139-144.
    • (2007) Chem. Phys. Lett. , vol.440 , pp. 139-144
    • Qi, Z.H.1    Qi, X.Q.2
  • 20
    • 79956122631 scopus 로고    scopus 로고
    • Graphical representation and mathematical characterization of protein sequences and applications to viral proteins
    • Ghosh A., Nandy A. Graphical representation and mathematical characterization of protein sequences and applications to viral proteins. Adv. Protein Chem. Struct. Biol. 2011, 83:1-42.
    • (2011) Adv. Protein Chem. Struct. Biol. , vol.83 , pp. 1-42
    • Ghosh, A.1    Nandy, A.2
  • 21
    • 2442509138 scopus 로고    scopus 로고
    • 2-D Graphical representation of proteins based on virtual genetic code
    • Randić M. 2-D Graphical representation of proteins based on virtual genetic code. SAR QSAR Environ. Res. 2004, 15(3):147-157.
    • (2004) SAR QSAR Environ. Res. , vol.15 , Issue.3 , pp. 147-157
    • Randić, M.1
  • 25
    • 71849120074 scopus 로고    scopus 로고
    • 2D graphical representation of protein sequence and its numerical characterization
    • Wen J., Zhang Y.Y.A. 2D graphical representation of protein sequence and its numerical characterization. Chem. Phys. Lett. 2009, 476:281-286.
    • (2009) Chem. Phys. Lett. , vol.476 , pp. 281-286
    • Wen, J.1    Zhang, Y.Y.A.2
  • 26
    • 77955673069 scopus 로고    scopus 로고
    • 2D-MH: a web-server for generating graphic representation of protein sequences based on the physicochemical properties of their constituent amino acids
    • Wu Z.C., Xiao X., Chou K.C. 2D-MH: a web-server for generating graphic representation of protein sequences based on the physicochemical properties of their constituent amino acids. J. Theor. Biol. 2010, 267:29-34.
    • (2010) J. Theor. Biol. , vol.267 , pp. 29-34
    • Wu, Z.C.1    Xiao, X.2    Chou, K.C.3
  • 27
    • 84938015047 scopus 로고
    • A method for the construction of minimum-redundancy codes
    • in: Proceedings of the I.R.E.
    • D.A. Huffman, A method for the construction of minimum-redundancy codes, in: Proceedings of the I.R.E.,1952, pp. 1098-1102.
    • (1952) , pp. 1098-1102
    • Huffman, D.A.1
  • 28
    • 32344433839 scopus 로고    scopus 로고
    • Novel 2-D graphical representation of proteins
    • Randić M., Butina D., Zupan J. Novel 2-D graphical representation of proteins. Chem. Phys. Lett. 2006, 419:528-532.
    • (2006) Chem. Phys. Lett. , vol.419 , pp. 528-532
    • Randić, M.1    Butina, D.2    Zupan, J.3
  • 29
    • 58149316600 scopus 로고    scopus 로고
    • Analysis of similarity/dissimilarity of protein sequences
    • Yao Y.H., Dai Q., Li C., et al. Analysis of similarity/dissimilarity of protein sequences. Proteins 2008, 73:864-871.
    • (2008) Proteins , vol.73 , pp. 864-871
    • Yao, Y.H.1    Dai, Q.2    Li, C.3
  • 30
    • 77953039087 scopus 로고    scopus 로고
    • Similarity/dissimilarity studies of protein sequences based on a new 2D graphic representation
    • Yao Y.H., Dai Q., Li L., et al. Similarity/dissimilarity studies of protein sequences based on a new 2D graphic representation. J. Comput. Chem. 2010, 31:1045-1052.
    • (2010) J. Comput. Chem. , vol.31 , pp. 1045-1052
    • Yao, Y.H.1    Dai, Q.2    Li, L.3
  • 31
    • 79953308534 scopus 로고    scopus 로고
    • Quat-2L: a web-server for predicting protein quaternary structural attributes
    • Xiao X., Wang P., Chou K.C. Quat-2L: a web-server for predicting protein quaternary structural attributes. Mol. Diversity 2010, 10.1007/s11030-010-9227-8.
    • (2010) Mol. Diversity
    • Xiao, X.1    Wang, P.2    Chou, K.C.3
  • 32
    • 32944461574 scopus 로고    scopus 로고
    • Using cellular automata images and pseudo amino acid composition to predict protein subcellular location
    • Xiao X., Shao S., Ding Y., et al. Using cellular automata images and pseudo amino acid composition to predict protein subcellular location. Amino Acids 2006, 30:49-54.
    • (2006) Amino Acids , vol.30 , pp. 49-54
    • Xiao, X.1    Shao, S.2    Ding, Y.3
  • 33
    • 0035945586 scopus 로고    scopus 로고
    • Genome sequence of enterohaemorrhagic Escherichia coli O157:H7
    • Nicole T.P., Guy P., Valerie B., et al. Genome sequence of enterohaemorrhagic Escherichia coli O157:H7. Nature 2001, 409(6819):529-533.
    • (2001) Nature , vol.409 , Issue.6819 , pp. 529-533
    • Nicole, T.P.1    Guy, P.2    Valerie, B.3
  • 34
    • 0035961748 scopus 로고    scopus 로고
    • Complete genome sequence of enterohemorrhagic Escherichia coli O157:H7 and genomic comparison with a laboratory strain K-12
    • Hayashi T., Makino K., Ohnishi M., et al. Complete genome sequence of enterohemorrhagic Escherichia coli O157:H7 and genomic comparison with a laboratory strain K-12. DNA Res. 2001, 28:11-22.
    • (2001) DNA Res. , vol.28 , pp. 11-22
    • Hayashi, T.1    Makino, K.2    Ohnishi, M.3
  • 35
    • 4544321685 scopus 로고    scopus 로고
    • Phages and the evolution of bacterial pathogens: from genomic rearrangements to lysogenic conversion
    • Brüssow H., Canchaya C., Hardt W.D. Phages and the evolution of bacterial pathogens: from genomic rearrangements to lysogenic conversion. Microbiol. Mol. Biol. Rev. 2004, 68:560-602.
    • (2004) Microbiol. Mol. Biol. Rev. , vol.68 , pp. 560-602
    • Brüssow, H.1    Canchaya, C.2    Hardt, W.D.3


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.