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Volumn 458, Issue , 2014, Pages 14-19

Predicting peroxidase subcellular location by hybridizing different descriptors of Chou' pseudo amino acid patterns

Author keywords

Chou' pseudo amino acid patterns; GO homology annotation; Peroxidase proteins; Prediction performance

Indexed keywords

AMINO ACIDS; PROTEINS; SUPPORT VECTOR MACHINES;

EID: 84901263873     PISSN: 00032697     EISSN: 10960309     Source Type: Journal    
DOI: 10.1016/j.ab.2014.04.032     Document Type: Article
Times cited : (72)

References (49)
  • 1
    • 67249122643 scopus 로고    scopus 로고
    • Analysis of expression profiles of three peroxidase genes associated with lignification in Arabidopsis thaliana
    • N. Tokunaga, T. Kaneta, S. Sato, and Y. Sato Analysis of expression profiles of three peroxidase genes associated with lignification in Arabidopsis thaliana Physiol. Plant. 136 2009 237 249
    • (2009) Physiol. Plant. , vol.136 , pp. 237-249
    • Tokunaga, N.1    Kaneta, T.2    Sato, S.3    Sato, Y.4
  • 2
    • 0037123359 scopus 로고    scopus 로고
    • Analysis and expression of the class III peroxidase large gene family in Arabidopsis thaliana
    • DOI 10.1016/S0378-1119(02)00465-1, PII S0378111902004651
    • M. Tognolli, C. Penel, H. Greppin, and P. Simon Analysis and expression of the class III peroxidase large gene family in Arabidopsis thaliana Gene 288 2002 129 138 (Pubitemid 34595370)
    • (2002) Gene , vol.288 , Issue.1-2 , pp. 129-138
    • Tognolli, M.1    Penel, C.2    Greppin, H.3    Simon, P.4
  • 6
    • 46449094871 scopus 로고    scopus 로고
    • Peroxidase: A term of many meanings
    • DOI 10.1089/ars.2008.2059
    • L. Flohé, and F. Ursini Peroxidase: a term of many meanings Antioxid. Redox Signal. 10 2008 1485 1490 (Pubitemid 351931934)
    • (2008) Antioxidants and Redox Signaling , vol.10 , Issue.9 , pp. 1485-1490
    • Flohe, L.1    Ursini, F.2
  • 7
    • 43049173503 scopus 로고    scopus 로고
    • Mammalian heme peroxidases: From molecular mechanisms to health implications
    • DOI 10.1089/ars.2007.1927
    • M.J. Davies, C.L. Hawkins, D.I. Pattison, and M.D. Rees Mammalian heme peroxidases: from molecular mechanisms to health implications Antioxid. Redox Signal. 10 2008 1199 1234 (Pubitemid 351634397)
    • (2008) Antioxidants and Redox Signaling , vol.10 , Issue.7 , pp. 1199-1234
    • Davies, M.J.1    Hawkins, C.L.2    Pattison, D.I.3    Rees, M.D.4
  • 8
    • 34548606295 scopus 로고    scopus 로고
    • Recent progress in protein subcellular location prediction
    • K.C. Chou, and H.B. Shen Recent progress in protein subcellular location prediction Anal. Biochem. 370 2007 1 16
    • (2007) Anal. Biochem. , vol.370 , pp. 1-16
    • Chou, K.C.1    Shen, H.B.2
  • 9
    • 77649339280 scopus 로고    scopus 로고
    • Recent advances in developing web-servers for predicting protein attributes
    • K.C. Chou, and H.B. Shen Recent advances in developing web-servers for predicting protein attributes Nat. Sci. 1 2009 63 92
    • (2009) Nat. Sci. , vol.1 , pp. 63-92
    • Chou, K.C.1    Shen, H.B.2
  • 10
    • 84874928986 scopus 로고    scopus 로고
    • ILoc-animal: A multi-label learning classifier for predicting subcellular localization of animal proteins
    • W.Z. Lin, J.A. Fang, X. Xiao, and K.C. Chou ILoc-animal: a multi-label learning classifier for predicting subcellular localization of animal proteins Mol. BioSyst. 9 2013 634 644
    • (2013) Mol. BioSyst. , vol.9 , pp. 634-644
    • Lin, W.Z.1    Fang, J.A.2    Xiao, X.3    Chou, K.C.4
  • 11
    • 0037233515 scopus 로고    scopus 로고
    • Subcellular location prediction of apoptosis proteins
    • DOI 10.1002/prot.10251
    • G.P. Zhou, and K. Doctor Subcellular location prediction of apoptosis proteins Proteins Struct. Funct. Bioinform. 50 2003 44 48 (Pubitemid 36090607)
    • (2003) Proteins: Structure, Function and Genetics , vol.50 , Issue.1 , pp. 44-48
    • Zhou, G.-P.1    Doctor, K.2
  • 12
    • 34249318001 scopus 로고    scopus 로고
    • Euk-mPLoc: A fusion classifier for large-scale eukaryotic protein subcellular location prediction by incorporating multiple sites
    • K.C. Chou, and H.B. Shen Euk-mPLoc: a fusion classifier for large-scale eukaryotic protein subcellular location prediction by incorporating multiple sites J. Proteome Res. 6 2007 1728 1734
    • (2007) J. Proteome Res. , vol.6 , pp. 1728-1734
    • Chou, K.C.1    Shen, H.B.2
  • 13
    • 33846605183 scopus 로고    scopus 로고
    • Large scale plant protein subcellular location prediction
    • K.C. Chou, and H.B. Shen 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
  • 14
    • 84864779292 scopus 로고    scopus 로고
    • Predicting protein submitochondria locations by combining different descriptors into the general form of Chou's pseudo amino acid composition
    • G.L. Fan, and Q.Z. Li Predicting protein submitochondria locations by combining different descriptors into the general form of Chou's pseudo amino acid composition Amino Acids 43 2012 545 555
    • (2012) Amino Acids , vol.43 , pp. 545-555
    • Fan, G.L.1    Li, Q.Z.2
  • 15
    • 84870391329 scopus 로고    scopus 로고
    • Identification of mycobacterial membrane proteins and their types using over-represented tripeptide compositions
    • C. Ding, L.F. Yuan, S.H. Guo, H. Lin, and W. Chen Identification of mycobacterial membrane proteins and their types using over-represented tripeptide compositions J. Proteomics 77 2012 321 328
    • (2012) J. Proteomics , vol.77 , pp. 321-328
    • Ding, C.1    Yuan, L.F.2    Guo, S.H.3    Lin, H.4    Chen, W.5
  • 16
    • 79951518208 scopus 로고    scopus 로고
    • Some remarks on protein attribute prediction and pseudo amino acid composition
    • K.C. Chou Some remarks on protein attribute prediction and pseudo amino acid composition J. Theor. Biol. 273 2011 236 247
    • (2011) J. Theor. Biol. , vol.273 , pp. 236-247
    • Chou, K.C.1
  • 17
    • 12744279642 scopus 로고    scopus 로고
    • Using amphiphilic pseudo amino acid composition to predict enzyme subfamily classes
    • K.C. Chou Using amphiphilic pseudo amino acid composition to predict enzyme subfamily classes Bioinformatics 21 2005 10 19
    • (2005) Bioinformatics , vol.21 , pp. 10-19
    • Chou, K.C.1
  • 18
    • 72449203319 scopus 로고    scopus 로고
    • Pseudo amino acid composition and its applications in bioinformatics, proteomics and system biology
    • K.C. Chou Pseudo amino acid composition and its applications in bioinformatics, proteomics and system biology Curr. Proteomics 6 2009 262 274
    • (2009) Curr. Proteomics , vol.6 , pp. 262-274
    • Chou, K.C.1
  • 19
    • 0035874091 scopus 로고    scopus 로고
    • Prediction of protein cellular attributes using pseudo-amino acid composition
    • K.C. Chou Prediction of protein cellular attributes using pseudo-amino acid composition Proteins Struct. Funct. Bioinform. 43 2001 246 255
    • (2001) Proteins Struct. Funct. Bioinform. , vol.43 , pp. 246-255
    • Chou, K.C.1
  • 20
    • 84863432335 scopus 로고    scopus 로고
    • Prediction of ketoacyl synthase family using reduced amino acid alphabets
    • W. Chen, P.M. Feng, and H. Lin Prediction of ketoacyl synthase family using reduced amino acid alphabets J. Ind. Microbiol. Biotechnol. 39 2012 579 584
    • (2012) J. Ind. Microbiol. Biotechnol. , vol.39 , pp. 579-584
    • Chen, W.1    Feng, P.M.2    Lin, H.3
  • 21
    • 84880069651 scopus 로고    scopus 로고
    • Predicting acidic and alkaline enzymes by incorporating the average chemical shift and gene ontology informations into the general form of Chou's PseAAC
    • G.L. Fan, Q.Z. Li, and Y.C. Zuo Predicting acidic and alkaline enzymes by incorporating the average chemical shift and gene ontology informations into the general form of Chou's PseAAC Process Biochem. 48 2013 1048 1053
    • (2013) Process Biochem. , vol.48 , pp. 1048-1053
    • Fan, G.L.1    Li, Q.Z.2    Zuo, Y.C.3
  • 22
    • 84878375446 scopus 로고    scopus 로고
    • A similarity distance of diversity measure for discriminating mesophilic and thermophilic proteins
    • Y.C. Zuo, W. Chen, G.L. Fan, and Q.Z. Li A similarity distance of diversity measure for discriminating mesophilic and thermophilic proteins Amino Acids 44 2012 573 580
    • (2012) Amino Acids , vol.44 , pp. 573-580
    • Zuo, Y.C.1    Chen, W.2    Fan, G.L.3    Li, Q.Z.4
  • 23
    • 77951666318 scopus 로고    scopus 로고
    • Using K-minimum increment of diversity to predict secretory proteins of malaria parasite based on groupings of amino acids
    • Y.C. Zuo, and Q.Z. Li Using K-minimum increment of diversity to predict secretory proteins of malaria parasite based on groupings of amino acids Amino acids 38 2009 859 867
    • (2009) Amino Acids , vol.38 , pp. 859-867
    • Zuo, Y.C.1    Li, Q.Z.2
  • 24
    • 70349333875 scopus 로고    scopus 로고
    • Using reduced amino acid composition to predict defensin family and subfamily: Integrating similarity measure and structural alphabet
    • Y.C. Zuo, and Q.Z. Li Using reduced amino acid composition to predict defensin family and subfamily: integrating similarity measure and structural alphabet Peptides 30 2009 1788 1793
    • (2009) Peptides , vol.30 , pp. 1788-1793
    • Zuo, Y.C.1    Li, Q.Z.2
  • 25
    • 84862763897 scopus 로고    scopus 로고
    • Predicting sub-cellular localization of tRNA synthetases from their primary structures
    • B. Panwar, and G.P.S. Raghava Predicting sub-cellular localization of tRNA synthetases from their primary structures Amino Acids 42 2011 1703 1713
    • (2011) Amino Acids , vol.42 , pp. 1703-1713
    • Panwar, B.1    Raghava, G.P.S.2
  • 26
    • 70349795723 scopus 로고    scopus 로고
    • Predicting protein subnuclear localization using GO amino acid composition features
    • W.L. Huang, C.W. Tung, H.L. Huang, and S.Y. Ho Predicting protein subnuclear localization using GO amino acid composition features Biosystems 98 2009 73 79
    • (2009) Biosystems , vol.98 , pp. 73-79
    • Huang, W.L.1    Tung, C.W.2    Huang, H.L.3    Ho, S.Y.4
  • 27
    • 33751393465 scopus 로고    scopus 로고
    • Assessing protein similarity with gene ontology and its use in subnuclear localization prediction
    • Z. Lei, and Y. Dai Assessing protein similarity with gene ontology and its use in subnuclear localization prediction BMC Bioinformatics 7 2006 491
    • (2006) BMC Bioinformatics , vol.7 , pp. 491
    • Lei, Z.1    Dai, Y.2
  • 28
    • 33847668306 scopus 로고    scopus 로고
    • Hum-mPLoc: An ensemble classifier for large-scale human protein subcellular location prediction by incorporating samples with multiple sites
    • H.B. Shen, and K.C. Chou Hum-mPLoc: an ensemble classifier for large-scale human protein subcellular location prediction by incorporating samples with multiple sites Biochem. Biophys. Res. Commun. 355 2007 1006 1011
    • (2007) Biochem. Biophys. Res. Commun. , vol.355 , pp. 1006-1011
    • Shen, H.B.1    Chou, K.C.2
  • 29
    • 79959282135 scopus 로고    scopus 로고
    • A multi-label classifier for predicting the subcellular localization of gram-negative bacterial proteins with both single and multiple sites
    • X. Xiao, Z.C. Wu, and K.C. Chou A multi-label classifier for predicting the subcellular localization of gram-negative bacterial proteins with both single and multiple sites PLoS One 6 2011 e20592
    • (2011) PLoS One , vol.6 , pp. 20592
    • Xiao, X.1    Wu, Z.C.2    Chou, K.C.3
  • 30
    • 79953316878 scopus 로고    scopus 로고
    • ILoc-Euk: A multi-label classifier for predicting the subcellular localization of singleplex and multiplex eukaryotic proteins
    • K.C. Chou, Z.C. Wu, and X. Xiao ILoc-Euk: a multi-label classifier for predicting the subcellular localization of singleplex and multiplex eukaryotic proteins PLoS One 6 2011 e18258
    • (2011) PLoS One , vol.6 , pp. 18258
    • Chou, K.C.1    Wu, Z.C.2    Xiao, X.3
  • 31
    • 84861309357 scopus 로고    scopus 로고
    • A multi-label predictor for identifying the subcellular locations of singleplex and multiplex eukaryotic proteins
    • X. Wang, and G.Z. Li A multi-label predictor for identifying the subcellular locations of singleplex and multiplex eukaryotic proteins PLoS One 7 2012 e36317
    • (2012) PLoS One , vol.7 , pp. 36317
    • Wang, X.1    Li, G.Z.2
  • 32
    • 79959667141 scopus 로고    scopus 로고
    • ILoc-Virus: A multi-label learning classifier for identifying the subcellular localization of virus proteins with both single and multiple sites
    • X. Xiao, Z.C. Wu, and K.C. Chou ILoc-Virus: a multi-label learning classifier for identifying the subcellular localization of virus proteins with both single and multiple sites J. Theor. Biol. 284 2011 42 51
    • (2011) J. Theor. Biol. , vol.284 , pp. 42-51
    • Xiao, X.1    Wu, Z.C.2    Chou, K.C.3
  • 34
    • 33745634395 scopus 로고    scopus 로고
    • Cd-hit: A fast program for clustering and comparing large sets of protein or nucleotide sequences
    • DOI 10.1093/bioinformatics/btl158
    • W. Li, and A. Godzik Cd-hit: a fast program for clustering and comparing large sets of protein or nucleotide sequences Bioinformatics 22 2006 1658 1659 (Pubitemid 43985301)
    • (2006) Bioinformatics , vol.22 , Issue.13 , pp. 1658-1659
    • Li, W.1    Godzik, A.2
  • 35
    • 79955702502 scopus 로고    scopus 로고
    • LIBSVM: A library for support vector machines
    • (Software available at)
    • C.C. Chang, C.J. Lin, LIBSVM: a library for support vector machines, ACM Trans. Intell. Syst. Technol. 2 (2011) 1-27 (Software available at http://www.csie.ntu.edu.tw/~cjlin/libsvm).
    • (2011) ACM Trans. Intell. Syst. Technol , vol.2 , pp. 1-27
    • Chang, C.C.1    Lin, C.J.2
  • 37
    • 84856376845 scopus 로고    scopus 로고
    • An ensemble classifier for eukaryotic protein subcellular location prediction using gene ontology categories and amino acid hydrophobicity
    • L. Li, Y. Zhang, L. Zou, C. Li, B. Yu, X. Zheng, and Y. Zhou An ensemble classifier for eukaryotic protein subcellular location prediction using gene ontology categories and amino acid hydrophobicity PLoS One 7 2012 e31057
    • (2012) PLoS One , vol.7 , pp. 31057
    • Li, L.1    Zhang, Y.2    Zou, L.3    Li, C.4    Yu, B.5    Zheng, X.6    Zhou, Y.7
  • 38
    • 78751591450 scopus 로고    scopus 로고
    • Identification of RNA-binding sites in proteins by integrating various sequence information
    • C.C. Wang, Y. Fang, J. Xiao, and M. Li Identification of RNA-binding sites in proteins by integrating various sequence information Amino Acids 40 2011 239 248
    • (2011) Amino Acids , vol.40 , pp. 239-248
    • Wang, C.C.1    Fang, Y.2    Xiao, J.3    Li, M.4
  • 39
    • 79959741759 scopus 로고    scopus 로고
    • CE-PLoc: An ensemble classifier for predicting protein subcellular locations by fusing different modes of pseudo amino acid composition
    • A. Khan, A. Majid, and M. Hayat CE-PLoc: an ensemble classifier for predicting protein subcellular locations by fusing different modes of pseudo amino acid composition Comput. Biol. Chem. 35 2011 218 229
    • (2011) Comput. Biol. Chem. , vol.35 , pp. 218-229
    • Khan, A.1    Majid, A.2    Hayat, M.3
  • 40
    • 78650209947 scopus 로고    scopus 로고
    • Prediction of thermophilic proteins using feature selection technique
    • H. Lin, and W. Chen Prediction of thermophilic proteins using feature selection technique J. Microbiol. Methods 84 2011 67 70
    • (2011) J. Microbiol. Methods , vol.84 , pp. 67-70
    • Lin, H.1    Chen, W.2
  • 41
    • 77958586156 scopus 로고    scopus 로고
    • Predicting ion channels and their types by the dipeptide mode of pseudo amino acid composition
    • H. Lin, and H. Ding Predicting ion channels and their types by the dipeptide mode of pseudo amino acid composition J. Theor. Biol. 269 2011 64 69
    • (2011) J. Theor. Biol. , vol.269 , pp. 64-69
    • Lin, H.1    Ding, H.2
  • 42
    • 84862651693 scopus 로고    scopus 로고
    • Mito-GSAAC: Mitochondria prediction using genetic ensemble classifier and split amino acid composition
    • T.H. Afridi, A. Khan, and Y.S. Lee Mito-GSAAC: mitochondria prediction using genetic ensemble classifier and split amino acid composition Amino Acids 42 2012 1443 1454
    • (2012) Amino Acids , vol.42 , pp. 1443-1454
    • Afridi, T.H.1    Khan, A.2    Lee, Y.S.3
  • 44
    • 33745759451 scopus 로고    scopus 로고
    • Hum-PLoc: A novel ensemble classifier for predicting human protein subcellular localization
    • K.C. Chou, and H.B. Shen 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
  • 46
    • 78650178724 scopus 로고    scopus 로고
    • Prediction of subcellular location of mycobacterial protein using feature selection techniques
    • H. Lin, H. Ding, F.B. Guo, and J. Huang Prediction of subcellular location of mycobacterial protein using feature selection techniques Mol. Divers. 14 2010 667 671
    • (2010) Mol. Divers. , vol.14 , pp. 667-671
    • Lin, H.1    Ding, H.2    Guo, F.B.3    Huang, J.4
  • 48
    • 84873955239 scopus 로고    scopus 로고
    • GOASVM: A subcellular location predictor by incorporating term-frequency gene ontology into the general form of Chou's pseudo-amino acid composition
    • S. Wan, M.W. Mak, and S.Y. Kung GOASVM: a subcellular location predictor by incorporating term-frequency gene ontology into the general form of Chou's pseudo-amino acid composition J. Theor. Biol. 323 2013 40 48
    • (2013) J. Theor. Biol. , vol.323 , pp. 40-48
    • Wan, S.1    Mak, M.W.2    Kung, S.Y.3
  • 49
    • 84887972825 scopus 로고    scopus 로고
    • Recent advances in predicting protein classification and their applications to drug development
    • X. Xiao, W.Z. Lin, and K.C. Chou Recent advances in predicting protein classification and their applications to drug development Curr. Top. Med. Chem. 13 2013 1622 1635
    • (2013) Curr. Top. Med. Chem. , vol.13 , pp. 1622-1635
    • Xiao, X.1    Lin, W.Z.2    Chou, K.C.3


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