메뉴 건너뛰기




Volumn 64, Issue 1, 2006, Pages 246-252

Disulfide connectivity prediction with 70% accuracy using two-level models

Author keywords

Disulfide bonding pattern; Disulfide connectivity; Hierarchical model; Support vector machine

Indexed keywords

DISULFIDE;

EID: 33744801136     PISSN: 08873585     EISSN: 10970134     Source Type: Journal    
DOI: 10.1002/prot.20972     Document Type: Article
Times cited : (27)

References (23)
  • 2
    • 0028063090 scopus 로고
    • Analysis and classification of disulphide connectivity in proteins
    • Harrison PM, Sternberg MJE. Analysis and classification of disulphide connectivity in proteins. J Mol Biol 1994;244:448-463.
    • (1994) J Mol Biol , vol.244 , pp. 448-463
    • Harrison, P.M.1    Sternberg, M.J.E.2
  • 3
    • 0033516514 scopus 로고    scopus 로고
    • Ab initio fold prediction of small helical proteins using distance geometry and knowledge-based scoring functions
    • Huang ES, Samudrala R, Ponder JW. Ab initio fold prediction of small helical proteins using distance geometry and knowledge-based scoring functions. J Mol Biol 1999;290:267-281.
    • (1999) J Mol Biol , vol.290 , pp. 267-281
    • Huang, E.S.1    Samudrala, R.2    Ponder, J.W.3
  • 4
    • 0026579140 scopus 로고
    • Different sequence environment of cysteines and half cysteines in proteins: Application to predict disulfide forming residues
    • Fiser A, Cserzô M, Tüdôs E, Simon I. Different sequence environment of cysteines and half cysteines in proteins: application to predict disulfide forming residues. FEBS Lett 1992;302:117-120.
    • (1992) FEBS Lett , vol.302 , pp. 117-120
    • Fiser, A.1    Cserzô, M.2    Tüdôs, E.3    Simon, I.4
  • 5
    • 0025118064 scopus 로고
    • Prediction of the disulfide-bonding state of cysteine in proteins
    • Muskal SM, Holbrook SR, Kim SH. Prediction of the disulfide-bonding state of cysteine in proteins. Protein Eng 1990;3:667-672.
    • (1990) Protein Eng , vol.3 , pp. 667-672
    • Muskal, S.M.1    Holbrook, S.R.2    Kim, S.H.3
  • 6
    • 0033566578 scopus 로고    scopus 로고
    • Role of evolutionary information in predicting the disulfide-bonding state of cysteine in proteins
    • Fariselli P, Riccobelli P, Casadio R. Role of evolutionary information in predicting the disulfide-bonding state of cysteine in proteins. Proteins Struct Funct Genet 1999;36:340-346.
    • (1999) Proteins Struct Funct Genet , vol.36 , pp. 340-346
    • Fariselli, P.1    Riccobelli, P.2    Casadio, R.3
  • 7
    • 0034039497 scopus 로고    scopus 로고
    • Predicting the oxidation state of cysteines by multiple sequence alignment
    • Fiser A, Simon I. Predicting the oxidation state of cysteines by multiple sequence alignment. Bioinformatics 2000;16:251-256.
    • (2000) Bioinformatics , vol.16 , pp. 251-256
    • Fiser, A.1    Simon, I.2
  • 8
    • 0036839271 scopus 로고    scopus 로고
    • Prediction of the disulfide-binding state of cysteines in proteins at 88% accuracy
    • Martelli PL, Fariselli P, Malaguti L, Casadio R. Prediction of the disulfide-binding state of cysteines in proteins at 88% accuracy. Protein Sci 2002;11:2735-2739.
    • (2002) Protein Sci , vol.11 , pp. 2735-2739
    • Martelli, P.L.1    Fariselli, P.2    Malaguti, L.3    Casadio, R.4
  • 10
    • 2542586190 scopus 로고    scopus 로고
    • Prediction of the bonding states of cysteines using the support vector machines based on multiple feature vectors and cysteine state sequences
    • Chen Y-C, Lin Y-S, Lin C-J, Hwang J-K. Prediction of the bonding states of cysteines using the support vector machines based on multiple feature vectors and cysteine state sequences. Proteins 2004;55:1036-1042.
    • (2004) Proteins , vol.55 , pp. 1036-1042
    • Chen, Y.-C.1    Lin, Y.-S.2    Lin, C.-J.3    Hwang, J.-K.4
  • 11
    • 0034781580 scopus 로고    scopus 로고
    • Prediction of disulfide connectivity in proteins
    • Fariselli P, Casadio R. Prediction of disulfide connectivity in proteins. Bioinformatics 2001;17:957-964.
    • (2001) Bioinformatics , vol.17 , pp. 957-964
    • Fariselli, P.1    Casadio, R.2
  • 13
    • 1842455284 scopus 로고    scopus 로고
    • Disulfide connectivity prediction using recursive neural networks and evolutionary information
    • Vullo A, Frasconi P. Disulfide connectivity prediction using recursive neural networks and evolutionary information. Bioinformatics 2004;20:653-659.
    • (2004) Bioinformatics , vol.20 , pp. 653-659
    • Vullo, A.1    Frasconi, P.2
  • 14
    • 17444411155 scopus 로고    scopus 로고
    • Cysteine separations profiles on protein sequences infer disulfide connectivity
    • Zhao E, Liu H-L, Tsai C-H, Tsai H-K, Chen C-H, Kao C-Y. Cysteine separations profiles on protein sequences infer disulfide connectivity. Bioinformatics 2005;21:1415-1420.
    • (2005) Bioinformatics , vol.21 , pp. 1415-1420
    • Zhao, E.1    Liu, H.-L.2    Tsai, C.-H.3    Tsai, H.-K.4    Chen, C.-H.5    Kao, C.-Y.6
  • 15
    • 84898931668 scopus 로고    scopus 로고
    • Large-scale prediction of disulphide bond connectivity
    • Saul LK, Weiss Y, Bottou L, editors. Cambridge, MA: MIT Press
    • Baldi P, Cheng J, Vullo A. Large-scale prediction of disulphide bond connectivity. In: Saul LK, Weiss Y, Bottou L, editors. Advances in neural information processing systems 17. Cambridge, MA: MIT Press; 2005. p 97-104.
    • (2005) Advances in Neural Information Processing Systems 17 , pp. 97-104
    • Baldi, P.1    Cheng, J.2    Vullo, A.3
  • 16
    • 19544393195 scopus 로고    scopus 로고
    • Disulfide connectivity prediction using secondary structure information and diresidue frequencies
    • Ferrè F, Clote P. Disulfide connectivity prediction using secondary structure information and diresidue frequencies. Bioinformatics 2005;21:2336-2346.
    • (2005) Bioinformatics , vol.21 , pp. 2336-2346
    • Ferrè, F.1    Clote, P.2
  • 17
    • 27544440502 scopus 로고    scopus 로고
    • Prediction of disulfide connectivity from protein sequences
    • Chen Y-C, Hwang J-K. Prediction of disulfide connectivity from protein sequences. Proteins Struct Funct Bioinformatics 2005;61: 507-512.
    • (2005) Proteins Struct Funct Bioinformatics , vol.61 , pp. 507-512
    • Chen, Y.-C.1    Hwang, J.-K.2
  • 18
    • 28944438120 scopus 로고    scopus 로고
    • Improving disulfide connectivity prediction with sequential distance between oxidized cysteines
    • Tsai C-H, Chen B-J, Chan C-h, Liu H-L, Kao C-Y. Improving disulfide connectivity prediction with sequential distance between oxidized cysteines. Bioinformatics 2005;21:4416-4419.
    • (2005) Bioinformatics , vol.21 , pp. 4416-4419
    • Tsai, C.-H.1    Chen, B.-J.2    Chan, C.-H.3    Liu, H.-L.4    Kao, C.-Y.5
  • 19
    • 0033957834 scopus 로고    scopus 로고
    • The SWISS-PROT protein sequence database and its supplement TrEMBL in 2000
    • Bairoch A, Apweiler R. The SWISS-PROT protein sequence database and its supplement TrEMBL in 2000. Nucleic Acids Res 2000;28:45-48.
    • (2000) Nucleic Acids Res , vol.28 , pp. 45-48
    • Bairoch, A.1    Apweiler, R.2
  • 20
    • 0003243224 scopus 로고    scopus 로고
    • Probabilistic outputs for support vector machines and comparison to regularized likelihood methods
    • Smola AJ, Bartlett PL, Schölkopf B, Schuurmans D, editors. Cambridge, MA: MIT Press
    • Platt J. Probabilistic outputs for support vector machines and comparison to regularized likelihood methods. In: Smola AJ, Bartlett PL, Schölkopf B, Schuurmans D, editors. Advances in Large Margin Classifiers. Cambridge, MA: MIT Press. 2000.
    • (2000) Advances in Large Margin Classifiers
    • Platt, J.1
  • 22
    • 0346493041 scopus 로고    scopus 로고
    • A novel database of disulfide patterns and its application to the discovery of distantly related homologs
    • Vlijmen HWTv, Gupta A, Narasimhan LS, Singh J. A novel database of disulfide patterns and its application to the discovery of distantly related homologs. J Mol Biol 2004;335:1083-1092.
    • (2004) J Mol Biol , vol.335 , pp. 1083-1092
    • Vlijmen, H.1    Gupta, A.2    Narasimhan, L.S.3    Singh, J.4


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.