메뉴 건너뛰기




Volumn 259, Issue 2, 2009, Pages 361-365

A novel representation for apoptosis protein subcellular localization prediction using support vector machine

Author keywords

Apoptosis protein; Distance frequency; Local features; Subcellular location; Support vector machine

Indexed keywords

AMINO ACID; APOPTOSIS PROTEIN; PROTEIN; UNCLASSIFIED DRUG;

EID: 67349230921     PISSN: 00225193     EISSN: 10958541     Source Type: Journal    
DOI: 10.1016/j.jtbi.2009.03.025     Document Type: Article
Times cited : (81)

References (39)
  • 1
    • 0032575688 scopus 로고    scopus 로고
    • The Bcl-2 protein family: arbiters of cell survival
    • Adams J.M., and Cory S. The Bcl-2 protein family: arbiters of cell survival. Science 281 (1998) 1322-1326
    • (1998) Science , vol.281 , pp. 1322-1326
    • Adams, J.M.1    Cory, S.2
  • 2
    • 33746717455 scopus 로고    scopus 로고
    • Predicting protein subcellular locations using hierarchical ensemble of Bayesian classifiers based on Markov chains
    • Bulashevska A., and Eils R. Predicting protein subcellular locations using hierarchical ensemble of Bayesian classifiers based on Markov chains. BMC Bioinf. 7 (2006) 298
    • (2006) BMC Bioinf. , vol.7 , pp. 298
    • Bulashevska, A.1    Eils, R.2
  • 3
    • 3242877807 scopus 로고    scopus 로고
    • ESLpred: SVM-based method for subcellular localization of eukaryotic proteins using dipeptide composition and PSI-BLAST
    • Bhasin M., and Raghava G.P.S. ESLpred: SVM-based method for subcellular localization of eukaryotic proteins using dipeptide composition and PSI-BLAST. Nucleic Acids Res. 32 (2004) W414-W419
    • (2004) Nucleic Acids Res. , vol.32
    • Bhasin, M.1    Raghava, G.P.S.2
  • 4
    • 0035672036 scopus 로고    scopus 로고
    • Support vector machines for prediction of protein subcellular location by incorporating quasi-sequence-order effect
    • Cai Y.D., Liu X.J., Xu X.B., and Chou K.C. Support vector machines for prediction of protein subcellular location by incorporating quasi-sequence-order effect. J. Cell. Biochem. 84 (2002) 343-348
    • (2002) J. Cell. Biochem. , vol.84 , pp. 343-348
    • Cai, Y.D.1    Liu, X.J.2    Xu, X.B.3    Chou, K.C.4
  • 6
    • 33947390931 scopus 로고    scopus 로고
    • Prediction of the subcellular location of apoptosis proteins
    • Chen Y.L., and Li Q.Z. Prediction of the subcellular location of apoptosis proteins. J. Theor. Biol. 245 (2007) 775-783
    • (2007) J. Theor. Biol. , vol.245 , pp. 775-783
    • Chen, Y.L.1    Li, Q.Z.2
  • 7
    • 34548009150 scopus 로고    scopus 로고
    • Prediction of apoptosis protein subcellular location using improved hybrid approach and pseudo amino acid composition
    • Chen Y.L., and Li Q.Z. Prediction of apoptosis protein subcellular location using improved hybrid approach and pseudo amino acid composition. J Theor. Biol. 248 (2007) 377-381
    • (2007) J Theor. Biol. , vol.248 , pp. 377-381
    • Chen, Y.L.1    Li, Q.Z.2
  • 8
    • 0029157083 scopus 로고
    • Review: prediction of protein structural classes
    • Chou K.C., and Zhang C.T. Review: prediction of protein structural classes. Crit. Rev. Biochem. Mol. Biol. 30 (1995) 275-349
    • (1995) Crit. Rev. Biochem. Mol. Biol. , vol.30 , pp. 275-349
    • Chou, K.C.1    Zhang, C.T.2
  • 9
    • 0032940342 scopus 로고    scopus 로고
    • Protein subcellular location prediction
    • Chou K.C., and Elrod D. Protein subcellular location prediction. Protein Eng. 12 (1999) 107-118
    • (1999) Protein Eng. , vol.12 , pp. 107-118
    • Chou, K.C.1    Elrod, D.2
  • 10
    • 0035874091 scopus 로고    scopus 로고
    • Prediction of protein cellular attributes using pseudo amino acid composition
    • (Erratum Chou, K.C., 2001. 44, 60)
    • Chou K.C. Prediction of protein cellular attributes using pseudo amino acid composition. Proteins Struct. Funct. Genet. 43 (2001) 246-255 (Erratum Chou, K.C., 2001. 44, 60)
    • (2001) Proteins Struct. Funct. Genet. , vol.43 , pp. 246-255
    • Chou, K.C.1
  • 11
    • 33748944288 scopus 로고    scopus 로고
    • Predicting protein subcellular location by fusing multiple classifiers
    • Chou K.C., and Shen H.B. Predicting protein subcellular location by fusing multiple classifiers. J. Cell. Biochem. 99 (2006) 517-527
    • (2006) J. Cell. Biochem. , vol.99 , pp. 517-527
    • Chou, K.C.1    Shen, H.B.2
  • 12
    • 33845423991 scopus 로고    scopus 로고
    • Large-scale predictions of Gram-negative bacterial protein subcellular locations
    • Chou K.C., and Shen H.B. Large-scale predictions of Gram-negative bacterial protein subcellular locations. J. Proteome Res. 5 (2006) 3420-3428
    • (2006) J. Proteome Res. , vol.5 , pp. 3420-3428
    • Chou, K.C.1    Shen, H.B.2
  • 13
    • 33747197197 scopus 로고    scopus 로고
    • Predicting eukaryotic protein subcellular location by fusing optimized evidence-theoretic K-nearest neighbor classifiers
    • Chou K.C., and Shen H.B. Predicting eukaryotic protein subcellular location by fusing optimized evidence-theoretic K-nearest neighbor classifiers. J. Proteome Res. 5 (2006) 1888-1897
    • (2006) J. Proteome Res. , vol.5 , pp. 1888-1897
    • Chou, K.C.1    Shen, H.B.2
  • 14
    • 33745759451 scopus 로고    scopus 로고
    • Hum-PLoc: a novel ensemble classifier for predicting human protein subcellular localization
    • Chou K.C., and Shen H.B. Hum-PLoc: a novel ensemble classifier for predicting human protein subcellular localization. Biochem. Biophys. Res. Commun. 347 (2006) 150-157
    • (2006) Biochem. Biophys. Res. Commun. , vol.347 , pp. 150-157
    • Chou, K.C.1    Shen, H.B.2
  • 15
    • 33846605183 scopus 로고    scopus 로고
    • Large-scale plant protein subcellular location prediction
    • Chou K.C., and Shen H.B. Large-scale plant protein subcellular location prediction. J. Cell. Biochem. 100 (2007) 665-678
    • (2007) J. Cell. Biochem. , vol.100 , pp. 665-678
    • Chou, K.C.1    Shen, H.B.2
  • 16
    • 0032575705 scopus 로고    scopus 로고
    • A matter of life and cell death
    • Evan G., and Littlewood T. A matter of life and cell death. Science 281 (1998) 1317-1322
    • (1998) Science , vol.281 , pp. 1317-1322
    • Evan, G.1    Littlewood, T.2
  • 17
    • 20444389765 scopus 로고    scopus 로고
    • Prediction of protein subcellular location using a combined feature of sequence
    • Gao Q.B., Wang Z.Z., Yan C., et al. Prediction of protein subcellular location using a combined feature of sequence. FEBS Lett. 579 (2005) 3444-3448
    • (2005) FEBS Lett. , vol.579 , pp. 3444-3448
    • Gao, Q.B.1    Wang, Z.Z.2    Yan, C.3
  • 18
    • 17644389617 scopus 로고    scopus 로고
    • SVM-based method for subcellular localization of human proteins using amino acid compositions, their order and similarity search
    • Garg A., Bhasin M., and Raghava G.P. SVM-based method for subcellular localization of human proteins using amino acid compositions, their order and similarity search. J. Biol. Chem. 280 (2005) 14427-14432
    • (2005) J. Biol. Chem. , vol.280 , pp. 14427-14432
    • Garg, A.1    Bhasin, M.2    Raghava, G.P.3
  • 19
  • 20
    • 0034843744 scopus 로고    scopus 로고
    • Support vector machine approach for protein subcellular localization prediction
    • Hua S., and Sun Z.R. Support vector machine approach for protein subcellular localization prediction. Bioinformatics 17 (2001) 721-728
    • (2001) Bioinformatics , vol.17 , pp. 721-728
    • Hua, S.1    Sun, Z.R.2
  • 21
    • 20044383961 scopus 로고    scopus 로고
    • Support vector machines for predicting apoptosis proteins types
    • Huang J., and Shi F. Support vector machines for predicting apoptosis proteins types. Acta Biotheor. 53 (2005) 39-47
    • (2005) Acta Biotheor. , vol.53 , pp. 39-47
    • Huang, J.1    Shi, F.2
  • 22
    • 0036505670 scopus 로고    scopus 로고
    • comparison of methods for multiclass support vector machines
    • Hsu C.W., and Lin C.J.A. comparison of methods for multiclass support vector machines. IEEE Trans. Neural Networks 13 2 (2002) 415-425
    • (2002) IEEE Trans. Neural Networks , vol.13 , Issue.2 , pp. 415-425
    • Hsu, C.W.1    Lin, C.J.A.2
  • 23
    • 0030947095 scopus 로고    scopus 로고
    • Programmed cell death in animal development
    • Jacobson M.D., Weil M., and Raff M.C. Programmed cell death in animal development. Cell 88 (1997) 347-354
    • (1997) Cell , vol.88 , pp. 347-354
    • Jacobson, M.D.1    Weil, M.2    Raff, M.C.3
  • 25
    • 29244465822 scopus 로고    scopus 로고
    • An SVM-based system for predicting protein subnuclear localizations
    • Lei Z., and Dai Y. An SVM-based system for predicting protein subnuclear localizations. BMC Bioinf. 6 (2005) 291
    • (2005) BMC Bioinf. , vol.6 , pp. 291
    • Lei, Z.1    Dai, Y.2
  • 26
    • 27644504110 scopus 로고    scopus 로고
    • A novel representation of protein sequences for prediction of subcellular location using support vector machines
    • Matsuda S., Vert J.P., Ueda N., Toh H., and Akutsu T. A novel representation of protein sequences for prediction of subcellular location using support vector machines. Protein Sci. 14 (2005) 2804-2813
    • (2005) Protein Sci. , vol.14 , pp. 2804-2813
    • Matsuda, S.1    Vert, J.P.2    Ueda, N.3    Toh, H.4    Akutsu, T.5
  • 27
    • 0028239038 scopus 로고
    • Discrimination of intracellular and extracellular proteins using amino acid composition and residue-pair frequencies
    • Nakashima H., and Nishikawa K. Discrimination of intracellular and extracellular proteins using amino acid composition and residue-pair frequencies. J. Mol. Biol. 238 (1994) 54-61
    • (1994) J. Mol. Biol. , vol.238 , pp. 54-61
    • Nakashima, H.1    Nishikawa, K.2
  • 28
    • 0141515750 scopus 로고    scopus 로고
    • Prediction of protein subcellular locations by support vector machines using compositions of amino acids and amino acid pairs
    • Park K.J., and Kanehisa M. Prediction of protein subcellular locations by support vector machines using compositions of amino acids and amino acid pairs. Bioinformatics 19 (2003) 1656-1663
    • (2003) Bioinformatics , vol.19 , pp. 1656-1663
    • Park, K.J.1    Kanehisa, M.2
  • 29
    • 13944250295 scopus 로고    scopus 로고
    • A new method for identification of protein (sub)families in a set of proteins based on hydropathy distribution in proteins
    • Pánek J., Eidhammer I., and Aasland R. A new method for identification of protein (sub)families in a set of proteins based on hydropathy distribution in proteins. Proteins Struct. Funct. Bioinf. 58 (2005) 923-934
    • (2005) Proteins Struct. Funct. Bioinf. , vol.58 , pp. 923-934
    • Pánek, J.1    Eidhammer, I.2    Aasland, R.3
  • 30
    • 0032511880 scopus 로고    scopus 로고
    • Cell suicide for beginners
    • Raff M. Cell suicide for beginners. Nature 396 (1998) 119-122
    • (1998) Nature , vol.396 , pp. 119-122
    • Raff, M.1
  • 31
    • 0033529266 scopus 로고    scopus 로고
    • Postmitochondrial regulation of apoptosis during heart failure
    • Reed J.C., and Paternostro G. Postmitochondrial regulation of apoptosis during heart failure. Proc. Natl. Acad. Sci. USA 96 (1999) 7614-7616
    • (1999) Proc. Natl. Acad. Sci. USA , vol.96 , pp. 7614-7616
    • Reed, J.C.1    Paternostro, G.2
  • 32
    • 0032918137 scopus 로고    scopus 로고
    • Caspases as treatment targets in stroke and neurodegenerative diseases
    • Schulz J.B., Weller M., and Moskowitz M.A. Caspases as treatment targets in stroke and neurodegenerative diseases. Ann. Neurol. 45 (1999)
    • (1999) Ann. Neurol. , vol.45
    • Schulz, J.B.1    Weller, M.2    Moskowitz, M.A.3
  • 33
    • 33847080827 scopus 로고    scopus 로고
    • Gpos-PLoc: an ensemble classifier for predicting subcellular localization of Gram-positive bacterial proteins
    • Shen H.B., and Chou K.C. Gpos-PLoc: an ensemble classifier for predicting subcellular localization of Gram-positive bacterial proteins. Protein Eng. Des. Sel. 20 (2007) 39-46
    • (2007) Protein Eng. Des. Sel. , vol.20 , pp. 39-46
    • Shen, H.B.1    Chou, K.C.2
  • 34
    • 49749119209 scopus 로고    scopus 로고
    • Using pseudo amino acid composition to predict protein subcellular location: approached with amino acid composition distribution
    • Shi J.Y., Zhang S.W., Pan Q., and Zhou G.P. Using pseudo amino acid composition to predict protein subcellular location: approached with amino acid composition distribution. Amino Acids 35 (2008) 321-327
    • (2008) Amino Acids , vol.35 , pp. 321-327
    • Shi, J.Y.1    Zhang, S.W.2    Pan, Q.3    Zhou, G.P.4
  • 35
    • 0033713002 scopus 로고    scopus 로고
    • Structure of Box: coregulation of dimmer formation and intracellular location
    • Suzuki M., Ypule R.J., and Tjandra N. Structure of Box: coregulation of dimmer formation and intracellular location. Cell 103 (2000) 645-654
    • (2000) Cell , vol.103 , pp. 645-654
    • Suzuki, M.1    Ypule, R.J.2    Tjandra, N.3
  • 37
    • 0037233515 scopus 로고    scopus 로고
    • Subcellular location prediction of apoptosis proteins
    • Zhou G.P., and Doctor K. Subcellular location prediction of apoptosis proteins. Proteins Struct. Funct. Genet. 50 (2003) 44-48
    • (2003) Proteins Struct. Funct. Genet. , vol.50 , pp. 44-48
    • Zhou, G.P.1    Doctor, K.2
  • 38
    • 33750528233 scopus 로고    scopus 로고
    • A novel method for apoptosis protein subcellular localization prediction combining encoding based on grouped weight and support vector machine
    • Zhang Z.H., Wang Z.H., Zhang Z.R., and Wang Y.X. A novel method for apoptosis protein subcellular localization prediction combining encoding based on grouped weight and support vector machine. FEBS Lett. 580 (2006) 6169-6174
    • (2006) FEBS Lett. , vol.580 , pp. 6169-6174
    • Zhang, Z.H.1    Wang, Z.H.2    Zhang, Z.R.3    Wang, Y.X.4
  • 39
    • 34548439881 scopus 로고    scopus 로고
    • Using Chou's amphiphilic pseudo-amino acid composition and support vector machine for prediction of enzyme subfamily classes
    • Zhou X.B., Chen C., Li Z.C., and Zou X.Y. Using Chou's amphiphilic pseudo-amino acid composition and support vector machine for prediction of enzyme subfamily classes. J. Theor. Biol. 248 (2007) 546-551
    • (2007) J. Theor. Biol. , vol.248 , pp. 546-551
    • Zhou, X.B.1    Chen, C.2    Li, Z.C.3    Zou, X.Y.4


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.