메뉴 건너뛰기




Volumn 23, Issue 24, 2007, Pages 3320-3327

Support Vector Machine-based classification of protein folds using the structural properties of amino acid residues and amino acid residue pairs

Author keywords

[No Author keywords available]

Indexed keywords

AMINO ACID;

EID: 36949013631     PISSN: 13674803     EISSN: 13674811     Source Type: Journal    
DOI: 10.1093/bioinformatics/btm527     Document Type: Article
Times cited : (92)

References (32)
  • 1
    • 24044435942 scopus 로고    scopus 로고
    • Reducing multi-class to binary: A unifying approach for margin classifiers
    • Allwein,E.L. et al. (2000) Reducing multi-class to binary: A unifying approach for margin classifiers. J. Mach. Learn. Res., 1, 113-141.
    • (2000) J. Mach. Learn. Res , vol.1 , pp. 113-141
    • Allwein, E.L.1
  • 2
    • 0030801002 scopus 로고    scopus 로고
    • Gapped BLAST and PSI-BLAST: A new generation of protein database search programs
    • Altschul,S.F. et al. (1997) Gapped BLAST and PSI-BLAST: A new generation of protein database search programs. Nucleic Acids Res. 25, 3389-3402.
    • (1997) Nucleic Acids Res , vol.25 , pp. 3389-3402
    • Altschul, S.F.1
  • 3
    • 2542458612 scopus 로고    scopus 로고
    • Classification of nuclear receptors based on amino acid composition and dipeptide composition
    • Bhasin,M. and Raghava,G. P. (2004) Classification of nuclear receptors based on amino acid composition and dipeptide composition. J. Biol. Chem., 279, 23262-23266.
    • (2004) J. Biol. Chem , vol.279 , pp. 23262-23266
    • Bhasin, M.1    Raghava, G.P.2
  • 4
    • 0348129526 scopus 로고    scopus 로고
    • The ASTRAL compendium in 2004
    • Chandonia, J. M. et al. (2004) The ASTRAL compendium in 2004. Nucleic Acids Res., 32, D189-D192.
    • (2004) Nucleic Acids Res , vol.32
    • Chandonia, J.M.1
  • 5
    • 10044235999 scopus 로고    scopus 로고
    • LIBSVM: A library for support vector machines
    • available at
    • Chang,C.C. and Lin,C.J. (2001) LIBSVM: A library for support vector machines. Software available at http://www.csie.ntu.edu.tw/-cjlin/libsvm.
    • (2001) Software
    • Chang, C.C.1    Lin, C.J.2
  • 6
    • 33745616114 scopus 로고    scopus 로고
    • A machine learning information retrieval approach to protein fold recognition
    • Cheng,J. and Baldi,P. (2006) A machine learning information retrieval approach to protein fold recognition. Bioinformatics, 22, 1456-1463.
    • (2006) Bioinformatics , vol.22 , pp. 1456-1463
    • Cheng, J.1    Baldi, P.2
  • 7
    • 23144465987 scopus 로고    scopus 로고
    • SCRATCH: A protein structure and structural feature prediction server
    • Cheng,J. et al. (2005) SCRATCH: A protein structure and structural feature prediction server. Nucleic Acids Res., 33, w72-w76.
    • (2005) Nucleic Acids Res , vol.33
    • Cheng, J.1
  • 9
    • 0035014847 scopus 로고    scopus 로고
    • Multi-class protein fold recognition using support vector machines and neural networks
    • Ding,C.H. and Dubchak,I. (2001) Multi-class protein fold recognition using support vector machines and neural networks. Bioinformatics, 17, 349-358.
    • (2001) Bioinformatics , vol.17 , pp. 349-358
    • Ding, C.H.1    Dubchak, I.2
  • 10
    • 19044382587 scopus 로고    scopus 로고
    • Round robin classification
    • Furnkranz,J. (2002) Round robin classification. J. Mach. Learn. Res., 2, 721-747.
    • (2002) J. Mach. Learn. Res , vol.2 , pp. 721-747
    • Furnkranz, J.1
  • 11
    • 17644389617 scopus 로고    scopus 로고
    • Support vector machine-based method for subeellular localization of human proteins using amino acid compositions, their order, and similarity search
    • Garg,A. et al. (2005) Support vector machine-based method for subeellular localization of human proteins using amino acid compositions, their order, and similarity search. J. Biol. Chem., 280, 14427-14432.
    • (2005) J. Biol. Chem , vol.280 , pp. 14427-14432
    • Garg, A.1
  • 12
    • 0039136604 scopus 로고    scopus 로고
    • Note on free lunches and cross-validation
    • Goutte,C. (1997) Note on free lunches and cross-validation. Neural Comput., 9, 1211-1215.
    • (1997) Neural Comput , vol.9 , pp. 1211-1215
    • Goutte, C.1
  • 13
    • 33749646840 scopus 로고    scopus 로고
    • GNBSL: A new integrative system to predict the subcellular location for Gram-negative bacteria proteins
    • Guo,J. et al. (2006) GNBSL: A new integrative system to predict the subcellular location for Gram-negative bacteria proteins. Proteomicsi, 6, 5099-5105.
    • (2006) Proteomicsi , vol.6 , pp. 5099-5105
    • Guo, J.1
  • 14
    • 0036505670 scopus 로고    scopus 로고
    • A comparison of methods for multi-class support vector machines
    • Hsu,C. and Lin,C. (2002) A comparison of methods for multi-class support vector machines. IEEE Trans. Neural Netw., 13, 415-425.
    • (2002) IEEE Trans. Neural Netw , vol.13 , pp. 415-425
    • Hsu, C.1    Lin, C.2
  • 16
    • 0026690571 scopus 로고
    • A new approach to protein fold recognition
    • Jones,D.T. et al. (1992) A new approach to protein fold recognition. Nature, 358, 86-89.
    • (1992) Nature , vol.358 , pp. 86-89
    • Jones, D.T.1
  • 17
    • 0036166451 scopus 로고    scopus 로고
    • Classifying G-protein coupled receptors with support vector machines
    • Karchin,R. et al. (2002) Classifying G-protein coupled receptors with support vector machines. Bioinformatics, 18, 147-159.
    • (2002) Bioinformatics , vol.18 , pp. 147-159
    • Karchin, R.1
  • 18
    • 0034595501 scopus 로고    scopus 로고
    • Enhanced genome annotation using structural profiles in the program 3D-PSSM
    • Kelley,L.A. et al. (2000) Enhanced genome annotation using structural profiles in the program 3D-PSSM. J. Mol. Biol., 299 499-520.
    • (2000) J. Mol. Biol , vol.299 , pp. 499-520
    • Kelley, L.A.1
  • 19
    • 0002229304 scopus 로고    scopus 로고
    • Pairwise classification and support vector machines
    • MIT Press, Cambridge, MA. pp
    • Krebel,U. (1999) Pairwise classification and support vector machines. Advances in Kernel Methods-Support Vector Learning, MIT Press, Cambridge, MA. pp. 255-268.
    • (1999) Advances in Kernel Methods-Support Vector Learning , pp. 255-268
    • Krebel, U.1
  • 20
    • 33748849648 scopus 로고    scopus 로고
    • Machine learning in bioinformatics
    • Larranaga,P. et al. (2006) Machine learning in bioinformatics. Brief., Bioinformatics, 7, 86-112.
    • (2006) Brief., Bioinformatics , vol.7 , pp. 86-112
    • Larranaga, P.1
  • 21
    • 0034044314 scopus 로고    scopus 로고
    • The PSIPRED protein structure prediction server
    • McGuffin,L.J. et al. (2000) The PSIPRED protein structure prediction server. Bioinformatics, 16, 404-405.
    • (2000) Bioinformatics , vol.16 , pp. 404-405
    • McGuffin, L.J.1
  • 22
    • 0028961335 scopus 로고
    • SCOP: A structural classification of proteins database. for the investigation of sequences and structures
    • Murzin,A.G. et al. (1995) SCOP: A structural classification of proteins database. for the investigation of sequences and structures. J. Mol. Biol., 247, 536-540.
    • (1995) J. Mol. Biol , vol.247 , pp. 536-540
    • Murzin, A.G.1
  • 23
    • 33747872590 scopus 로고    scopus 로고
    • BaCelLo: A balanced subcellular-localization predictor
    • Pierleoni,A. et al. (2006) BaCelLo: A balanced subcellular-localization predictor. Bioinformatics, 22, e408-e416.
    • (2006) Bioinformatics , vol.22
    • Pierleoni, A.1
  • 24
    • 0027291015 scopus 로고
    • Prediction of protein secondary structure at better than 70% accuracy
    • Rost,B. and Sander,C. (1993) Prediction of protein secondary structure at better than 70% accuracy. J. Mol. Biol., 232, 584-599.
    • (1993) J. Mol. Biol , vol.232 , pp. 584-599
    • Rost, B.1    Sander, C.2
  • 25
    • 36949011924 scopus 로고
    • Ph.D. Thesis. University of London
    • Sali,A. (1991) Ph.D. Thesis. University of London.
    • (1991)
    • Sali, A.1
  • 26
    • 33747880465 scopus 로고    scopus 로고
    • Ensemble classifier for protein fold pattern recognition
    • Shen,H.B. and Chou,K.C. (2006) Ensemble classifier for protein fold pattern recognition. Bioinformatics, 22, 1717-1722.
    • (2006) Bioinformatics , vol.22 , pp. 1717-1722
    • Shen, H.B.1    Chou, K.C.2
  • 27
    • 0035967880 scopus 로고    scopus 로고
    • FUGUE: Sequence-structure homology recognition using, environment-specific substitution tables and structure-dependent gap penalties
    • Shi,J. et al. (2001) FUGUE: Sequence-structure homology recognition using, environment-specific substitution tables and structure-dependent gap penalties. J. Mol. Biol., 310, 243-257.
    • (2001) J. Mol. Biol , vol.310 , pp. 243-257
    • Shi, J.1
  • 31
    • 33748259637 scopus 로고    scopus 로고
    • Better prediction of the location of α-turns in proteins with support vector machine
    • Wang,Y. et al. (2006) Better prediction of the location of α-turns in proteins with support vector machine. Proteins Struct. Funct. Bioinformatics, 65, 49-54.
    • (2006) Proteins Struct. Funct. Bioinformatics , vol.65 , pp. 49-54
    • Wang, Y.1
  • 32
    • 20744453541 scopus 로고    scopus 로고
    • Biological applications of support vector machines
    • Yang,Z.R. (2004) Biological applications of support vector machines. Brief. Bioinformatics, 5, 328-338.
    • (2004) Brief. Bioinformatics , vol.5 , pp. 328-338
    • Yang, Z.R.1


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.