메뉴 건너뛰기




Volumn 9, Issue , 2008, Pages

ESLpred2: Improved method for predicting subcellular localization of eukaryotic proteins

Author keywords

[No Author keywords available]

Indexed keywords

ACCURATE PREDICTION; EUKARYOTIC PROTEINS; EVOLUTIONARY INFORMATION; N-TERMINAL SEQUENCES; PREDICTION METHODS; PREDICTION PERFORMANCE; PROTEIN SEQUENCE DATABASE; SUBCELLULAR LOCALIZATIONS;

EID: 58149307468     PISSN: None     EISSN: 14712105     Source Type: Journal    
DOI: 10.1186/1471-2105-9-503     Document Type: Article
Times cited : (48)

References (34)
  • 1
    • 0027105007 scopus 로고
    • A knowledge base for predicting protein localization sites in eukaryotic cells
    • 10.1016/S0888-7543(05)80111-9 1478671
    • Nakai K Kanehisa M A knowledge base for predicting protein localization sites in eukaryotic cells Genomics 1992, 14:897-911. 10.1016/ S0888-7543(05)80111-9 1478671
    • (1992) Genomics , vol.14 , pp. 897-911
    • Nakai, K.1    Kanehisa, M.2
  • 2
    • 0032972509 scopus 로고    scopus 로고
    • PSORT: A program for detecting sorting signals in proteins and predicting their subcellular localization
    • 10.1016/S0968-0004(98)01336-X 10087920
    • Nakai K Horton P PSORT: A program for detecting sorting signals in proteins and predicting their subcellular localization Trends Biochem Sci 1999, 24:34-36. 10.1016/S0968-0004(98)01336-X 10087920
    • (1999) Trends Biochem Sci , vol.24 , pp. 34-36
    • Nakai, K.1    Horton, P.2
  • 3
    • 0032077533 scopus 로고    scopus 로고
    • Using neural networks for prediction of the subcellular location of proteins
    • 147531 9547285 10.1093/nar/26.9.2230
    • Reinhardt A Hubbard T Using neural networks for prediction of the subcellular location of proteins Nucleic Acids Res 1998, 26:2230-2236. 147531 9547285 10.1093/nar/26.9.2230
    • (1998) Nucleic Acids Res , vol.26 , pp. 2230-2236
    • Reinhardt, A.1    Hubbard, T.2
  • 5
    • 0347093598 scopus 로고    scopus 로고
    • Prediction of protein subcellular locations using fuzzy kNN method
    • 10.1093/bioinformatics/btg366 14693804
    • Huang Y Li Y Prediction of protein subcellular locations using fuzzy kNN method Bioinformatics 2004, 20:21-28. 10.1093/bioinformatics/btg366 14693804
    • (2004) Bioinformatics , vol.20 , pp. 21-28
    • Huang, Y.1    Li, Y.2
  • 6
    • 0034697980 scopus 로고    scopus 로고
    • Predicting subcellular localization of proteins based on their N-terminal amino acid sequence
    • 10.1006/jmbi.2000.3903 10891285
    • Emanuelsson O Nielsen H Brunak S von Heijne G Predicting subcellular localization of proteins based on their N-terminal amino acid sequence J Mol Biol 2000, 300:1005-1016. 10.1006/jmbi.2000.3903 10891285
    • (2000) J Mol Biol , vol.300 , pp. 1005-1016
    • Emanuelsson, O.1    Nielsen, H.2    Brunak, S.3    von Heijne, G.4
  • 7
    • 0034843744 scopus 로고    scopus 로고
    • Support vector machine approach for protein subcellular localization prediction
    • 10.1093/bioinformatics/17.8.721 11524373
    • Hua S Sun Z Support vector machine approach for protein subcellular localization prediction Bioinformatics 2001, 17:721-728. 10.1093/ bioinformatics/17.8.721 11524373
    • (2001) Bioinformatics , vol.17 , pp. 721-728
    • Hua, S.1    Sun, Z.2
  • 8
    • 3042521098 scopus 로고    scopus 로고
    • Improved prediction of signal peptides: SignalP 3.0
    • 10.1016/j.jmb.2004.05.028 15223320
    • Bendtsen JD Nielsen H von Heijne G Brunak S Improved prediction of signal peptides: SignalP 3.0 J Mol Biol 2004, 340:783-795. 10.1016/ j.jmb.2004.05.028 15223320
    • (2004) J Mol Biol , vol.340 , pp. 783-795
    • Bendtsen, J.D.1    Nielsen, H.2    von Heijne, G.3    Brunak, S.4
  • 9
    • 1942505330 scopus 로고    scopus 로고
    • Predicting subcellular localization of proteins for Gram-negative bacteria by support vector machines based on n-peptide compositions
    • 2286765 15096640 10.1110/ps.03479604
    • Yu CS Lin CJ Hwang JK Predicting subcellular localization of proteins for Gram-negative bacteria by support vector machines based on n-peptide compositions Protein Sci 2004, 13:1402-1406. 2286765 15096640 10.1110/ ps.03479604
    • (2004) Protein Sci , vol.13 , pp. 1402-1406
    • Yu, C.S.1    Lin, C.J.2    Hwang, J.K.3
  • 10
    • 3242891478 scopus 로고    scopus 로고
    • LOCnet and LOCtarget: Subcellular localization for structural genomics targets
    • 441579 15215440 10.1093/nar/gkh441
    • Nair R Rost B LOCnet and LOCtarget: Subcellular localization for structural genomics targets Nucleic Acids Res 2004, 32:W517-W521. 441579 15215440 10.1093/nar/gkh441
    • (2004) Nucleic Acids Res , vol.32
    • Nair, R.1    Rost, B.2
  • 11
    • 19544388127 scopus 로고    scopus 로고
    • PSLpred: Prediction of subcellular localization of bacterial proteins
    • 10.1093/bioinformatics/bti309 15699023
    • Bhasin M Garg A Raghava GP PSLpred: Prediction of subcellular localization of bacterial proteins Bioinformatics 2005, 21:2522-25244. 10.1093/bioinformatics/bti309 15699023
    • (2005) Bioinformatics , vol.21 , pp. 2522-25244
    • Bhasin, M.1    Garg, A.2    Raghava, G.P.3
  • 12
    • 17644389617 scopus 로고    scopus 로고
    • Support vector machine-based method for subcellular localization of human proteins using amino acid compositions, their order, and similarity search
    • 10.1074/jbc.M411789200 15647269
    • Garg A Bhasin M Raghava GP Support vector machine-based method for subcellular localization of human proteins using amino acid compositions, their order, and similarity search J Biol Chem 2005, 280:14427-14432. 10.1074/jbc.M411789200 15647269
    • (2005) J Biol Chem , vol.280 , pp. 14427-14432
    • Garg, A.1    Bhasin, M.2    Raghava, G.P.3
  • 13
    • 0141515750 scopus 로고    scopus 로고
    • Prediction of protein subcellular locations by support vector machines using compositions of amino acids and amino acid pairs
    • 10.1093/bioinformatics/btg222 12967962
    • Park KJ Kanehisa M Prediction of protein subcellular locations by support vector machines using compositions of amino acids and amino acid pairs Bioinformatics 2003, 19:1656-1663. 10.1093/bioinformatics/btg222 12967962
    • (2003) Bioinformatics , vol.19 , pp. 1656-1663
    • Park, K.J.1    Kanehisa, M.2
  • 14
    • 33646861792 scopus 로고    scopus 로고
    • MultiLoc: Prediction of protein subcellular localization using N-terminal targeting sequences, sequence motifs and amino acid composition
    • 10.1093/bioinformatics/btl002 16428265
    • Hoglund A Donnes P Blum T Adolph HW Kohlbacher O MultiLoc: Prediction of protein subcellular localization using N-terminal targeting sequences, sequence motifs and amino acid composition Bioinformatics 2006, 22:1158-1165. 10.1093/bioinformatics/btl002 16428265
    • (2006) Bioinformatics , vol.22 , pp. 1158-1165
    • Hoglund, A.1    Donnes, P.2    Blum, T.3    Adolph, H.W.4    Kohlbacher, O.5
  • 15
    • 16244398103 scopus 로고    scopus 로고
    • Mimicking cellular sorting improves prediction of subcellular localization
    • 10.1016/j.jmb.2005.02.025 15808855
    • Nair R Rost B Mimicking cellular sorting improves prediction of subcellular localization J Mol Biol 2005, 348:85-100. 10.1016/ j.jmb.2005.02.025 15808855
    • (2005) J Mol Biol , vol.348 , pp. 85-100
    • Nair, R.1    Rost, B.2
  • 16
    • 3242876302 scopus 로고    scopus 로고
    • Proteome Analyst: Custom predictions with explanations in a web-based tool for high-throughput proteome annotations
    • 441623 441623 15215412 10.1093/nar/gkh485
    • Szafron D Lu P Greiner R Wishart DS Poulin B Eisner R Lu Z Anvik J Macdonell C Fyshe A et al Proteome Analyst: Custom predictions with explanations in a web-based tool for high-throughput proteome annotations Nucleic Acids Res 2004, 32:W365-371. 441623 15215412 10.1093/ nar/gkh485
    • (2004) Nucleic Acids Res , vol.32
    • Szafron, D.1    Lu, P.2    Greiner, R.3    Wishart, D.S.4    Poulin, B.5    Eisner, R.6    Lu, Z.7    Anvik, J.8    Macdonell, C.9    Fyshe, A.10
  • 17
    • 33747893531 scopus 로고    scopus 로고
    • TSSub: Eukaryotic protein subcellular localization by extracting features from profiles
    • 10.1093/bioinformatics/btl180 16787975
    • Guo J Lin Y TSSub: Eukaryotic protein subcellular localization by extracting features from profiles Bioinformatics 2006, 22:1784-1785. 10.1093/bioinformatics/btl180 16787975
    • (2006) Bioinformatics , vol.22 , pp. 1784-1785
    • Guo, J.1    Lin, Y.2
  • 18
    • 33747872590 scopus 로고    scopus 로고
    • BaCelLo: A balanced subcellular localization predictor
    • 10.1093/bioinformatics/btl222
    • Pierleoni A Martelli PL Fariselli P Casadio R BaCelLo: A balanced subcellular localization predictor Bioinformatics 2006, 22:408-416. 10.1093/bioinformatics/btl222
    • (2006) Bioinformatics , vol.22 , pp. 408-416
    • Pierleoni, A.1    Martelli, P.L.2    Fariselli, P.3    Casadio, R.4
  • 19
    • 2942513121 scopus 로고    scopus 로고
    • Esub8: A novel tool to predict protein subcellular localizations in eukaryotic organisms
    • 420457 15163352 10.1186/1471-2105-5-66
    • Cui Q Jiang T Liu B Ma S Esub8: A novel tool to predict protein subcellular localizations in eukaryotic organisms BMC Bioinformatics 2004, 5:66. 420457 15163352 10.1186/1471-2105-5-66
    • (2004) BMC Bioinformatics , vol.5 , pp. 66
    • Cui, Q.1    Jiang, T.2    Liu, B.3    Ma, S.4
  • 20
    • 3242877807 scopus 로고    scopus 로고
    • ESLpred: SVM-based method for subcellular localization of eukaryotic proteins using dipeptide composition and PSI-BLAST
    • 441488 15215421 10.1093/nar/gkh350
    • Bhasin M Raghava GP ESLpred: SVM-based method for subcellular localization of eukaryotic proteins using dipeptide composition and PSI-BLAST Nucleic Acids Res 2004, 32:W414-W419. 441488 15215421 10.1093/ nar/gkh350
    • (2004) Nucleic Acids Res , vol.32
    • Bhasin, M.1    Raghava, G.P.2
  • 21
    • 23144461988 scopus 로고    scopus 로고
    • LOCSVMPSI: A web server for subcellular localization of eukaryotic proteins using SVM and profile of PSI-BLAST
    • 1160120 15980436 10.1093/nar/gki359
    • Xie D Li A Wang M Fan Z Feng H LOCSVMPSI: A web server for subcellular localization of eukaryotic proteins using SVM and profile of PSI-BLAST Nucleic Acids Res 2005, 33:W105-110. 1160120 15980436 10.1093/nar/gki359
    • (2005) Nucleic Acids Res , vol.33
    • Xie, D.1    Li, A.2    Wang, M.3    Fan, Z.4    Feng, H.5
  • 22
    • 27644504110 scopus 로고    scopus 로고
    • A novel representation of protein sequences for prediction of subcellular location using support vector machines
    • 2253224 16251364 10.1110/ps.051597405
    • Matsuda S Vert JP Saigo H Ueda N Toh H Akutsu T A novel representation of protein sequences for prediction of subcellular location using support vector machines Protein Sci 2005, 14:2804-2813. 2253224 16251364 10.1110/ps.051597405
    • (2005) Protein Sci , vol.14 , pp. 2804-2813
    • Matsuda, S.1    Vert, J.P.2    Saigo, H.3    Ueda, N.4    Toh, H.5    Akutsu, T.6
  • 23
    • 25444506574 scopus 로고    scopus 로고
    • pSLIP: SVM based protein subcellular localization prediction using multiple physicochemical properties
    • 1182350 15963230 10.1186/1471-2105-6-152
    • Sarda D Chua GH Li KB Krishnan A pSLIP: SVM based protein subcellular localization prediction using multiple physicochemical properties BMC Bioinformatics 2005, 6:152. 1182350 15963230 10.1186/1471-2105-6-152
    • (2005) BMC Bioinformatics , vol.6 , pp. 152
    • Sarda, D.1    Chua, G.H.2    Li, K.B.3    Krishnan, A.4
  • 24
    • 3142779931 scopus 로고    scopus 로고
    • Prediction of protein subcellular locations by GO-FunD-PseAA predictor
    • 10.1016/j.bbrc.2004.06.073
    • Chou KC Cai YD Prediction of protein subcellular locations by GO-FunD-PseAA predictor Biochemical and Biophysical Research Communications 2004, 320:1236-1239. 10.1016/j.bbrc.2004.06.073
    • (2004) Biochemical and Biophysical Research Communications , vol.320 , pp. 1236-1239
    • Chou, K.C.1    Cai, Y.D.2
  • 25
    • 34248531753 scopus 로고    scopus 로고
    • Locating proteins in the cell using TargetP, SignalP and related tools
    • 10.1038/nprot.2007.131 17446895
    • Emanuelsson O Brunak S von Heijne G Nielsen H Locating proteins in the cell using TargetP, SignalP and related tools Nat Protoc 2007, 2:953-971. 10.1038/nprot.2007.131 17446895
    • (2007) Nat Protoc , vol.2 , pp. 953-971
    • Emanuelsson, O.1    Brunak, S.2    von Heijne, G.3    Nielsen, H.4
  • 26
    • 0033578684 scopus 로고
    • Protein secondary structure prediction based on position-specific scoring matrices
    • 10.1006/jmbi.1999.3091
    • Jones DT Protein secondary structure prediction based on position-specific scoring matrices J Mol Biol 1991, 292:195-202. 10.1006/ jmbi.1999.3091
    • (1991) J Mol Biol , vol.292 , pp. 195-202
    • Jones, D.T.1
  • 27
    • 0037372098 scopus 로고    scopus 로고
    • Prediction of beta-turns in proteins from multiple alignment using neural network
    • 2312433 12592033 10.1110/ps.0228903
    • Kaur H Raghava GP Prediction of beta-turns in proteins from multiple alignment using neural network Protein Sci 2003, 12:627-34. 2312433 12592033 10.1110/ps.0228903
    • (2003) Protein Sci , vol.12 , pp. 627-634
    • Kaur, H.1    Raghava, G.P.2
  • 28
    • 26444473604 scopus 로고    scopus 로고
    • Real value prediction of solvent accessibility in proteins using multiple sequence alignment and secondary structure
    • 10.1002/prot.20630 16106377
    • Garg A Kaur H Raghava GPS Real value prediction of solvent accessibility in proteins using multiple sequence alignment and secondary structure Proteins 2005, 61:318-325. 10.1002/prot.20630 16106377
    • (2005) Proteins , vol.61 , pp. 318-325
    • Garg, A.1    Kaur, H.2    Raghava, G.P.S.3
  • 29
    • 84888290840 scopus 로고    scopus 로고
    • PLOC: Prediction of Subcellular Location of Proteins
    • Park K Kanehisa M PLOC: Prediction of Subcellular Location of Proteins Genome Informatics 2003, 14:559-560.
    • (2003) Genome Informatics , vol.14 , pp. 559-560
    • Park, K.1    Kanehisa, M.2
  • 30
    • 46049118177 scopus 로고    scopus 로고
    • AAIndexLoc: Predicting subcellular localization of proteins based on a new representation of sequences using amino acid indices
    • 10.1007/s00726-007-0616-y 18163182
    • Tantoso E Li KB AAIndexLoc: Predicting subcellular localization of proteins based on a new representation of sequences using amino acid indices Amino Acids 2008, 35:345-353. 10.1007/s00726-007-0616-y 18163182
    • (2008) Amino Acids , vol.35 , pp. 345-353
    • Tantoso, E.1    Li, K.B.2
  • 31
    • 40249110012 scopus 로고    scopus 로고
    • ProLoc-GO: Utilizing informative Gene Ontology terms for sequence-based prediction of protein subcellular localization
    • 2262056 18241343 10.1186/1471-2105-9-80
    • Huang WL Tung CW Ho SW Hwang SF Ho SY ProLoc-GO: Utilizing informative Gene Ontology terms for sequence-based prediction of protein subcellular localization BMC Bioinformatics 2008, 9:80. 2262056 18241343 10.1186/ 1471-2105-9-80
    • (2008) BMC Bioinformatics , vol.9 , pp. 80
    • Huang, W.L.1    Tung, C.W.2    Ho, S.W.3    Hwang, S.F.4    Ho, S.Y.5
  • 32
    • 39449105071 scopus 로고    scopus 로고
    • Cell-PLoc: A package of Web servers for predicting subcellular localization of proteins in various organisms
    • 10.1038/nprot.2007.494 18274516
    • Chou KC Shen HB Cell-PLoc: A package of Web servers for predicting subcellular localization of proteins in various organisms Nat Protoc 2008, 3:153-62. 10.1038/nprot.2007.494 18274516
    • (2008) Nat Protoc , vol.3 , pp. 153-162
    • Chou, K.C.1    Shen, H.B.2
  • 33
    • 0030801002 scopus 로고    scopus 로고
    • Gapped BLAST and PSI-BLAST: A new generation of protein database search programs
    • 146917 9254694 10.1093/nar/25.17.3389
    • Altschul SF Madden TL Schaffer AA Zhang Z Miller W Lipman DJ Gapped BLAST and PSI-BLAST: A new generation of protein database search programs Nucleic Acids Res 1997, 25:3389-3402. 146917 9254694 10.1093/ nar/25.17.3389
    • (1997) Nucleic Acids Res , vol.25 , pp. 3389-3402
    • Altschul, S.F.1    Madden, T.L.2    Schaffer, A.A.3    Zhang, Z.4    Miller, W.5    Lipman, D.J.6
  • 34
    • 44449101758 scopus 로고    scopus 로고
    • Supervised learning method for the prediction of subcellular localization of proteins using amino acid and amino acid pair composition
    • 2386058 18366605 10.1186/1471-2164-9-S1-S16
    • Habib T Zhang C Yang JY Yang MQ Deng Y Supervised learning method for the prediction of subcellular localization of proteins using amino acid and amino acid pair composition BMC Genomics 2008, 9(1):S16. 2386058 18366605 10.1186/1471-2164-9-S1-S16
    • (2008) BMC Genomics , vol.9 , Issue.1
    • Habib, T.1    Zhang, C.2    Yang, J.Y.3    Yang, M.Q.4    Deng, Y.5


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.