메뉴 건너뛰기




Volumn 8, Issue 8, 2017, Pages 13338-13343

Pse-Analysis: A python package for DNA/RNA and protein/ peptide sequence analysis based on pseudo components and kernel methods

Author keywords

Genome proteome analysis; Pseudo components; Sequence analysis; Support vector machine

Indexed keywords

DNA; PEPTIDE; PROTEIN; RNA;

EID: 85013243690     PISSN: None     EISSN: 19492553     Source Type: Journal    
DOI: 10.18632/oncotarget.14524     Document Type: Article
Times cited : (120)

References (69)
  • 1
    • 84876053736 scopus 로고    scopus 로고
    • iRSpot-PseDNC: identify recombination spots with pseudo dinucleotide composition
    • Chen W, Feng PM, Lin H, Chou KC. iRSpot-PseDNC: identify recombination spots with pseudo dinucleotide composition Nucleic Acids Res. 2013; 41:e68
    • (2013) Nucleic Acids Res , vol.41
    • Chen, W.1    Feng, P.M.2    Lin, H.3    Chou, K.C.4
  • 2
    • 84892958175 scopus 로고    scopus 로고
    • iRSpot-TNCPseAAC: Identify recombination spots with trinucleotide composition and pseudo amino acid components
    • Qiu WR, Xiao X. iRSpot-TNCPseAAC: Identify recombination spots with trinucleotide composition and pseudo amino acid components. Int J Mol Sci (IJMS). 2014; 15:1746-1766
    • (2014) Int J Mol Sci (IJMS) , vol.15 , pp. 1746-1766
    • Qiu, W.R.1    Xiao, X.2
  • 3
    • 84955690130 scopus 로고    scopus 로고
    • iRSpot-GAEnsC: identifing recombination spots via ensemble classifier and extending the concept of Chou's PseAAC to formulate DNA samples
    • Kabir M, Hayat M. iRSpot-GAEnsC: identifing recombination spots via ensemble classifier and extending the concept of Chou's PseAAC to formulate DNA samples. Molecular Genetics and Genomics. 2016; 291:285-296
    • (2016) Molecular Genetics and Genomics , vol.291 , pp. 285-296
    • Kabir, M.1    Hayat, M.2
  • 4
    • 85014869605 scopus 로고    scopus 로고
    • iRSpot-EL: identify recombination spots with an ensemble learning approach
    • Liu B, Wang S, Long R. iRSpot-EL: identify recombination spots with an ensemble learning approach. Bioinformatics. 2016; doi:10.1093/bioinformatics/btw539
    • (2016) Bioinformatics
    • Liu, B.1    Wang, S.2    Long, R.3
  • 5
    • 84858247152 scopus 로고    scopus 로고
    • Nucleosome positioning based on the sequence word composition
    • Yi XF, He ZS, Kong XY. Nucleosome positioning based on the sequence word composition. Protein & Peptide Letters. 2012; 19:79-90
    • (2012) Protein & Peptide Letters , vol.19 , pp. 79-90
    • Yi, X.F.1    He, Z.S.2    Kong, X.Y.3
  • 6
    • 84868128310 scopus 로고    scopus 로고
    • iNuc-PhysChem: A Sequence-Based Predictor for Identifying Nucleosomes via Physicochemical Properties
    • Chen W, Lin H, Feng PM, Ding C. iNuc-PhysChem: A Sequence-Based Predictor for Identifying Nucleosomes via Physicochemical Properties. PLoS ONE. 2012; 7:e47843
    • (2012) PLoS ONE , vol.7
    • Chen, W.1    Lin, H.2    Feng, P.M.3    Ding, C.4
  • 7
    • 84896463976 scopus 로고    scopus 로고
    • iNuc-PseKNC: a sequence-based predictor for predicting nucleosome positioning in genomes with pseudo k-tuple nucleotide composition
    • Guo SH, Deng EZ, Xu LQ, Ding H, Lin H. iNuc-PseKNC: a sequence-based predictor for predicting nucleosome positioning in genomes with pseudo k-tuple nucleotide composition. Bioinformatics. 2014; 30:1522-1529
    • (2014) Bioinformatics , vol.30 , pp. 1522-1529
    • Guo, S.H.1    Deng, E.Z.2    Xu, L.Q.3    Ding, H.4    Lin, H.5
  • 8
    • 84979255705 scopus 로고    scopus 로고
    • iNuc-STNC: a sequence-based predictor for identification of nucleosome positioning in genomes by extending the concept of SAAC and Chou's PseAAC
    • Tahir M, Hayat M. iNuc-STNC: a sequence-based predictor for identification of nucleosome positioning in genomes by extending the concept of SAAC and Chou's PseAAC. Mol Biosyst. 2016; 12:2587-2593
    • (2016) Mol Biosyst , vol.12 , pp. 2587-2593
    • Tahir, M.1    Hayat, M.2
  • 9
    • 84958059324 scopus 로고    scopus 로고
    • Using deformation energy to analyze nucleosome positioning in genomes
    • Chen W, Feng P, Ding H. Using deformation energy to analyze nucleosome positioning in genomes. Genomics. 2016; 107:69-75
    • (2016) Genomics , vol.107 , pp. 69-75
    • Chen, W.1    Feng, P.2    Ding, H.3
  • 10
    • 84941040066 scopus 로고    scopus 로고
    • iPro54-PseKNC: a sequence-based predictor for identifying sigma-54 promoters in prokaryote with pseudo k-tuple nucleotide composition
    • Lin H, Deng EZ, Ding H, Chen W, Chou KC. iPro54-PseKNC: a sequence-based predictor for identifying sigma-54 promoters in prokaryote with pseudo k-tuple nucleotide composition. Nucleic Acids Res. 2014; 42:12961-12972
    • (2014) Nucleic Acids Res , vol.42 , pp. 12961-12972
    • Lin, H.1    Deng, E.Z.2    Ding, H.3    Chen, W.4    Chou, K.C.5
  • 11
    • 84942244470 scopus 로고    scopus 로고
    • Identification of microRNA precursor with the degenerate K-tuple or Kmer strategy
    • Liu B, Fang L, Wang S, Wang X. Identification of microRNA precursor with the degenerate K-tuple or Kmer strategy. Journal of Theoretical Biology. 2015; 385:153-159
    • (2015) Journal of Theoretical Biology , vol.385 , pp. 153-159
    • Liu, B.1    Fang, L.2    Wang, S.3    Wang, X.4
  • 12
    • 84926631457 scopus 로고    scopus 로고
    • Identification of real microRNA precursors with a pseudo structure status composition approach
    • Liu B, Fang L, Liu F, Wang X. Identification of real microRNA precursors with a pseudo structure status composition approach. PLoS ONE. 2015; 10:e0121501
    • (2015) PLoS ONE , vol.10
    • Liu, B.1    Fang, L.2    Liu, F.3    Wang, X.4
  • 13
    • 84954388556 scopus 로고    scopus 로고
    • iMiRNA-PseDPC: microRNA precursor identification with a pseudo distance-pair composition approach
    • Liu B, Fang L, Liu F, Wang X. iMiRNA-PseDPC: microRNA precursor identification with a pseudo distance-pair composition approach. J Biomol Struct Dyn (JBSD). 2016; 34:223-235
    • (2016) J Biomol Struct Dyn (JBSD) , vol.34 , pp. 223-235
    • Liu, B.1    Fang, L.2    Liu, F.3    Wang, X.4
  • 14
    • 83055181959 scopus 로고    scopus 로고
    • Discriminative prediction of mammalian enhancers from DNA sequence
    • Lee D, Karchin R, Beer MA. Discriminative prediction of mammalian enhancers from DNA sequence. Genome Res. 2011; 21:2167-2180
    • (2011) Genome Res , vol.21 , pp. 2167-2180
    • Lee, D.1    Karchin, R.2    Beer, M.A.3
  • 15
    • 84962263478 scopus 로고    scopus 로고
    • iEnhancer-2L: a two-layer predictor for identifying enhancers and their strength by pseudo k-tuple nucleotide composition
    • Liu B, Fang L, Long R, Lan X. iEnhancer-2L: a two-layer predictor for identifying enhancers and their strength by pseudo k-tuple nucleotide composition Bioinformatics. 2016; 32:362-369
    • (2016) Bioinformatics , vol.32 , pp. 362-369
    • Liu, B.1    Fang, L.2    Long, R.3    Lan, X.4
  • 16
    • 75149196287 scopus 로고    scopus 로고
    • The mechanism of eukaryotic translation initiation and principles of its regulation
    • Jackson RJ, Hellen CU, Pestova TV. The mechanism of eukaryotic translation initiation and principles of its regulation. Nat Rev Mol Cell Biol. 2010; 11:113-127
    • (2010) Nat Rev Mol Cell Biol , vol.11 , pp. 113-127
    • Jackson, R.J.1    Hellen, C.U.2    Pestova, T.V.3
  • 17
    • 84921500317 scopus 로고    scopus 로고
    • iTIS-PseTNC: a sequencebased predictor for identifying translation initiation site in human genes using pseudo trinucleotide composition
    • Chen W, Feng PM, Deng EZ. iTIS-PseTNC: a sequencebased predictor for identifying translation initiation site in human genes using pseudo trinucleotide composition. Anal Biochem. 2014; 462:76-83
    • (2014) Anal Biochem , vol.462 , pp. 76-83
    • Chen, W.1    Feng, P.M.2    Deng, E.Z.3
  • 18
    • 84923361176 scopus 로고    scopus 로고
    • iDNA-Methyl: Identifying DNA methylation sites via pseudo trinucleotide compositi
    • (also, Data in Brief, 2015, 4:87-89)
    • Liu Z, Xiao X, Qiu WR. iDNA-Methyl: Identifying DNA methylation sites via pseudo trinucleotide composition. Analytical Biochemistry (also, Data in Brief, 2015, 4:87-89). 2015; 474:69-77
    • (2015) Analytical Biochemistry , vol.474 , pp. 69-77
    • Liu, Z.1    Xiao, X.2    Qiu, W.R.3
  • 19
    • 84942246769 scopus 로고    scopus 로고
    • iRNA-Methyl: Identifying N6-methyladenosine sites using pseudo nucleotide composit
    • (also, Data in Brief, 2015, 5: 376-378)
    • Chen W, Feng P, Ding H, Lin H. iRNA-Methyl: Identifying N6-methyladenosine sites using pseudo nucleotide composition. Analytical Biochemistry (also, Data in Brief, 2015, 5: 376-378). 2015; 490:26-33
    • (2015) Analytical Biochemistry , vol.490 , pp. 26-33
    • Chen, W.1    Feng, P.2    Ding, H.3    Lin, H.4
  • 20
    • 84956829573 scopus 로고    scopus 로고
    • pRNAm-PC: Predicting N-methyladenosine sites in RNA sequences via physicalchemical properties
    • Liu Z, Xiao X, Yu DJ, Jia J, Qiu WR. pRNAm-PC: Predicting N-methyladenosine sites in RNA sequences via physicalchemical properties. Anal Biochem. 2016; 497:60-67
    • (2016) Anal Biochem , vol.497 , pp. 60-67
    • Liu, Z.1    Xiao, X.2    Yu, D.J.3    Jia, J.4    Qiu, W.R.5
  • 22
    • 84973610882 scopus 로고    scopus 로고
    • iROS-gPseKNC: predicting replication origin sites in DNA by incorporating dinucleotide position-specific propensity into general pseudo nucleotide composition
    • Xiao X, Ye HX, Liu Z, Jia JH. iROS-gPseKNC: predicting replication origin sites in DNA by incorporating dinucleotide position-specific propensity into general pseudo nucleotide composition. Oncotarget. 2016; 7:34180-34189
    • (2016) Oncotarget , vol.7 , pp. 34180-34189
    • Xiao, X.1    Ye, H.X.2    Liu, Z.3    Jia, J.H.4
  • 23
    • 84994316617 scopus 로고    scopus 로고
    • iOri-Human: identify human origin of replication by incorporating dinucleotide physicochemical properties into pseudo nucleotide composition
    • Zhang CJ, Tang H, Li WC, Lin H. iOri-Human: identify human origin of replication by incorporating dinucleotide physicochemical properties into pseudo nucleotide composition. Oncotarget. 2016; 7:69783-69793
    • (2016) Oncotarget , vol.7 , pp. 69783-69793
    • Zhang, C.J.1    Tang, H.2    Li, W.C.3    Lin, H.4
  • 24
    • 85011954173 scopus 로고    scopus 로고
    • iRNA-AI: identifying the adenosine to inosine editing sites in RNA sequences
    • Chen W, Feng P, Yang H, Ding H. iRNA-AI: identifying the adenosine to inosine editing sites in RNA sequences. Oncotarget. 2016; doi:10.18632/oncotarget.13758
    • (2016) Oncotarget
    • Chen, W.1    Feng, P.2    Yang, H.3    Ding, H.4
  • 25
    • 84941783146 scopus 로고    scopus 로고
    • Pseudo nucleotide composition or PseKNC: an effective formulation for analyzing genomic sequences
    • Chen W, Lin H, Chou KC. Pseudo nucleotide composition or PseKNC: an effective formulation for analyzing genomic sequences. Mol BioSyst. 2015; 11:2620-2634
    • (2015) Mol BioSyst , vol.11 , pp. 2620-2634
    • Chen, W.1    Lin, H.2    Chou, K.C.3
  • 26
    • 84873575437 scopus 로고    scopus 로고
    • iSNO-PseAAC: Predict cysteine S-nitrosylation sites in proteins by incorporating position specific amino acid propensity into pseudo amino acid composition
    • Xu Y, Ding J, Wu LY. iSNO-PseAAC: Predict cysteine S-nitrosylation sites in proteins by incorporating position specific amino acid propensity into pseudo amino acid composition PLoS ONE. 2013; 8:e55844
    • (2013) PLoS ONE , vol.8
    • Xu, Y.1    Ding, J.2    Wu, L.Y.3
  • 27
    • 84885156363 scopus 로고    scopus 로고
    • iSNO-AAPair: incorporating amino acid pairwise coupling into PseAAC for predicting cysteine S-nitrosylation sites in proteins
    • Xu Y, Shao XJ, Wu LY, Deng NY. iSNO-AAPair: incorporating amino acid pairwise coupling into PseAAC for predicting cysteine S-nitrosylation sites in proteins. PeerJ. 2013; 1:e171
    • (2013) PeerJ , vol.1
    • Xu, Y.1    Shao, X.J.2    Wu, L.Y.3    Deng, N.Y.4
  • 28
    • 84902162941 scopus 로고    scopus 로고
    • iMethyl-PseAAC: Identification of Protein Methylation Sites via a Pseudo Amino Acid Composition Approach
    • Qiu WR, Xiao X, Lin WZ. iMethyl-PseAAC: Identification of Protein Methylation Sites via a Pseudo Amino Acid Composition Approach. Biomed Res Int (BMRI). 2014; 2014:947416
    • (2014) Biomed Res Int (BMRI) , vol.2014
    • Qiu, W.R.1    Xiao, X.2    Lin, W.Z.3
  • 29
    • 84899856397 scopus 로고    scopus 로고
    • iHyd-PseAAC: Predicting hydroxyproline and hydroxylysine in proteins by incorporating dipeptide position-specific propensity into pseudo amino acid composition
    • Xu Y, Wen X, Shao XJ. iHyd-PseAAC: Predicting hydroxyproline and hydroxylysine in proteins by incorporating dipeptide position-specific propensity into pseudo amino acid composition. Int J Mol Sci. 2014; 15:7594-7610
    • (2014) Int J Mol Sci , vol.15 , pp. 7594-7610
    • Xu, Y.1    Wen, X.2    Shao, X.J.3
  • 30
    • 84902299537 scopus 로고    scopus 로고
    • Prediction of Protein S-Nitrosylation Sites Based on Adapted Normal Distribution Bi-Profile Bayes and Chou's Pseudo Amino Acid Composition
    • Jia C, Lin X, Wang Z. Prediction of Protein S-Nitrosylation Sites Based on Adapted Normal Distribution Bi-Profile Bayes and Chou's Pseudo Amino Acid Composition. Int J Mol Sci. 2014; 15:10410-10423
    • (2014) Int J Mol Sci , vol.15 , pp. 10410-10423
    • Jia, C.1    Lin, X.2    Wang, Z.3
  • 31
    • 84903398779 scopus 로고    scopus 로고
    • PSNO: Predicting Cysteine S-Nitrosylation Sites by Incorporating Various Sequence-Derived Features into the General Form of Chou's PseAAC
    • Zhang J, Zhao X, Sun P, Ma Z. PSNO: Predicting Cysteine S-Nitrosylation Sites by Incorporating Various Sequence-Derived Features into the General Form of Chou's PseAAC. Int J Mol Sci. 2014; 15:11204-11219
    • (2014) Int J Mol Sci , vol.15 , pp. 11204-11219
    • Zhang, J.1    Zhao, X.2    Sun, P.3    Ma, Z.4
  • 32
    • 84905982402 scopus 로고    scopus 로고
    • iNitro-Tyr: Prediction of nitrotyrosine sites in proteins with general pseudo amino acid composition
    • Xu Y, Wen X, Wen LS, Wu LY. iNitro-Tyr: Prediction of nitrotyrosine sites in proteins with general pseudo amino acid composition. PLoS ONE. 2014; 9:e105018
    • (2014) PLoS ONE , vol.9
    • Xu, Y.1    Wen, X.2    Wen, L.S.3    Wu, L.Y.4
  • 33
    • 84930570742 scopus 로고    scopus 로고
    • iUbiq-Lys: Prediction of lysine ubiquitination sites in proteins by extracting sequence evolution information via a grey system model
    • Qiu WR, Xiao X, Lin WZ. iUbiq-Lys: Prediction of lysine ubiquitination sites in proteins by extracting sequence evolution information via a grey system model Journal of Biomolecular Structure and Dynamics. 2015; 33:1731-1742
    • (2015) Journal of Biomolecular Structure and Dynamics , vol.33 , pp. 1731-1742
    • Qiu, W.R.1    Xiao, X.2    Lin, W.Z.3
  • 34
    • 84961384421 scopus 로고    scopus 로고
    • iSuc-PseOpt: Identifying lysine succinylation sites in proteins by incorporating sequencecoupling effects into pseudo components and optimizing imbalanced training dataset
    • Jia J, Liu Z, Xiao X, Liu B. iSuc-PseOpt: Identifying lysine succinylation sites in proteins by incorporating sequencecoupling effects into pseudo components and optimizing imbalanced training dataset. Anal Biochem. 2016; 497:48-56
    • (2016) Anal Biochem , vol.497 , pp. 48-56
    • Jia, J.1    Liu, Z.2    Xiao, X.3    Liu, B.4
  • 35
    • 84957073578 scopus 로고    scopus 로고
    • pSuc-Lys: Predict lysine succinylation sites in proteins with PseAAC and ensemble random forest approach
    • Jia J, Liu Z, Xiao X. pSuc-Lys: Predict lysine succinylation sites in proteins with PseAAC and ensemble random forest approach. J Theor Biol. 2016; 394:223-230
    • (2016) J Theor Biol , vol.394 , pp. 223-230
    • Jia, J.1    Liu, Z.2    Xiao, X.3
  • 36
    • 84969836704 scopus 로고    scopus 로고
    • iPhos-PseEvo: Identifying human phosphorylated proteins by incorporating evolutionary information into general PseAAC via grey system theory
    • Qiu WR, Sun BQ, Xiao X. iPhos-PseEvo: Identifying human phosphorylated proteins by incorporating evolutionary information into general PseAAC via grey system theory. Molecular Informatics. 2016; doi:10.1002/minf.201600010
    • (2016) Molecular Informatics
    • Qiu, W.R.1    Sun, B.Q.2    Xiao, X.3
  • 37
    • 84973637727 scopus 로고    scopus 로고
    • iCar-PseCp: identify carbonylation sites in proteins by Monto Carlo sampling and incorporating sequence coupled effects into general PseAAC
    • Jia J, Liu Z, Xiao X. iCar-PseCp: identify carbonylation sites in proteins by Monto Carlo sampling and incorporating sequence coupled effects into general PseAAC. Oncotarget. 2016; 7:34558-34570
    • (2016) Oncotarget , vol.7 , pp. 34558-34570
    • Jia, J.1    Liu, Z.2    Xiao, X.3
  • 38
    • 84995377061 scopus 로고    scopus 로고
    • pSumo-CD: Predicting sumoylation sites in proteins with covariance discriminant algorithm by incorporating sequence-coupled effects into general PseAAC
    • Jia J, Zhang L, Liu Z, Xiao X. pSumo-CD: Predicting sumoylation sites in proteins with covariance discriminant algorithm by incorporating sequence-coupled effects into general PseAAC. Bioinformatics. 2016; 32:3133-3141
    • (2016) Bioinformatics , vol.32 , pp. 3133-3141
    • Jia, J.1    Zhang, L.2    Liu, Z.3    Xiao, X.4
  • 39
    • 84978634483 scopus 로고    scopus 로고
    • iHyd-PseCp: Identify hydroxyproline and hydroxylysine in proteins by incorporating sequence-coupled effects into general PseAAC
    • Qiu WR, Sun BQ, Xiao X, Xu ZC. iHyd-PseCp: Identify hydroxyproline and hydroxylysine in proteins by incorporating sequence-coupled effects into general PseAAC. Oncotarget. 2016; 7:44310-44321
    • (2016) Oncotarget , vol.7 , pp. 44310-44321
    • Qiu, W.R.1    Sun, B.Q.2    Xiao, X.3    Xu, Z.C.4
  • 40
    • 84995428311 scopus 로고    scopus 로고
    • iPTM-mLys: identifying multiple lysine PTM sites and their different types
    • Qiu WR, Sun BQ, Xiao X. iPTM-mLys: identifying multiple lysine PTM sites and their different types. Bioinformatics. 2016; 32:3116-3123
    • (2016) Bioinformatics , vol.32 , pp. 3116-3123
    • Qiu, W.R.1    Sun, B.Q.2    Xiao, X.3
  • 41
    • 84978664062 scopus 로고    scopus 로고
    • iPhos-PseEn: identifying phosphorylation sites in proteins by fusing different pseudo components into an ensemble classifier
    • Qiu WR, Xiao X, Xu ZH. iPhos-PseEn: identifying phosphorylation sites in proteins by fusing different pseudo components into an ensemble classifier. Oncotarget. 2016; 7:51270-51283
    • (2016) Oncotarget , vol.7 , pp. 51270-51283
    • Qiu, W.R.1    Xiao, X.2    Xu, Z.H.3
  • 42
    • 84962586763 scopus 로고    scopus 로고
    • Recent progress in predicting posttranslational modification sites in proteins
    • Xu Y. Recent progress in predicting posttranslational modification sites in proteins. Curr Top Med Chem. 2016; 16:591-603
    • (2016) Curr Top Med Chem , vol.16 , pp. 591-603
    • Xu, Y.1
  • 43
    • 84886433492 scopus 로고    scopus 로고
    • Predicting anticancer peptides with Chou's pseudo amino acid composition and investigating their mutagenicity via Ames test
    • Hajisharifi Z, Piryaiee M, Mohammad Beigi M, Behbahani M, Mohabatkar H. Predicting anticancer peptides with Chou's pseudo amino acid composition and investigating their mutagenicity via Ames test. J Theor Biol. 2014; 341:34-40
    • (2014) J Theor Biol , vol.341 , pp. 34-40
    • Hajisharifi, Z.1    Piryaiee, M.2    Mohammad Beigi, M.3    Behbahani, M.4    Mohabatkar, H.5
  • 44
    • 84962865637 scopus 로고    scopus 로고
    • iACP: a sequence-based tool for identifying anticancer peptides
    • Chen W, Ding H, Feng P, Lin H. iACP: a sequence-based tool for identifying anticancer peptides. Oncotarget. 2016; 7:16895-16909
    • (2016) Oncotarget , vol.7 , pp. 16895-16909
    • Chen, W.1    Ding, H.2    Feng, P.3    Lin, H.4
  • 45
    • 84893021381 scopus 로고    scopus 로고
    • iEzy-Drug: A web server for identifying the interaction between enzymes and drugs in cellular networking
    • Min JL, Xiao X. iEzy-Drug: A web server for identifying the interaction between enzymes and drugs in cellular networking. BioMed Research International (BMRI). 2013; 2013:701317
    • (2013) BioMed Research International (BMRI) , vol.2013
    • Min, J.L.1    Xiao, X.2
  • 46
    • 84883143619 scopus 로고    scopus 로고
    • iGPCR-Drug: A web server for predicting interaction between GPCRs and drugs in cellular networking
    • Xiao X, Min JL, Wang P. iGPCR-Drug: A web server for predicting interaction between GPCRs and drugs in cellular networking. PLoS ONE. 2013; 8:e72234
    • (2013) PLoS ONE , vol.8
    • Xiao, X.1    Min, J.L.2    Wang, P.3
  • 47
    • 84883661549 scopus 로고    scopus 로고
    • iCDI-PseFpt: Identify the channeldrug interaction in cellular networking with PseAAC and molecular fingerprints
    • Xiao X, Min JL, Wang P. iCDI-PseFpt: Identify the channeldrug interaction in cellular networking with PseAAC and molecular fingerprints. J Theor Biol. 2013; 337C:71-79
    • (2013) J Theor Biol , vol.337C , pp. 71-79
    • Xiao, X.1    Min, J.L.2    Wang, P.3
  • 48
    • 84896470341 scopus 로고    scopus 로고
    • iNR-Drug: Predicting the interaction of drugs with nuclear receptors in cellular networking
    • Fan YN, Xiao X, Min JL. iNR-Drug: Predicting the interaction of drugs with nuclear receptors in cellular networking. Intenational Journal of Molecular Sciences. 2014; 15:4915-4937
    • (2014) Intenational Journal of Molecular Sciences , vol.15 , pp. 4915-4937
    • Fan, Y.N.1    Xiao, X.2    Min, J.L.3
  • 49
    • 84938953300 scopus 로고    scopus 로고
    • iDrug-Target: predicting the interactions between drug compounds and target proteins in cellular networking via the benchmark dataset optimization approach
    • Xiao X, Min JL, Lin WZ, Liu Z. iDrug-Target: predicting the interactions between drug compounds and target proteins in cellular networking via the benchmark dataset optimization approach. J Biomol Struct Dyn. 2015; 33:2221-2233
    • (2015) J Biomol Struct Dyn , vol.33 , pp. 2221-2233
    • Xiao, X.1    Min, J.L.2    Lin, W.Z.3    Liu, Z.4
  • 50
    • 84928722799 scopus 로고    scopus 로고
    • iPPI-Esml: an ensemble classifier for identifying the interactions of proteins by incorporating their physicochemical properties and wavelet transforms into PseAAC
    • Jia J, Liu Z, Xiao X. iPPI-Esml: an ensemble classifier for identifying the interactions of proteins by incorporating their physicochemical properties and wavelet transforms into PseAAC. J Theor Biol. 2015; 377:47-56
    • (2015) J Theor Biol , vol.377 , pp. 47-56
    • Jia, J.1    Liu, Z.2    Xiao, X.3
  • 51
    • 84981217089 scopus 로고    scopus 로고
    • Identification of proteinprotein binding sites by incorporating the physicochemical properties and stationary wavelet transforms into pseudo amino acid composition (iPPBS-PseAAC)
    • Jia J, Liu Z, Xiao X, Liu B. Identification of proteinprotein binding sites by incorporating the physicochemical properties and stationary wavelet transforms into pseudo amino acid composition (iPPBS-PseAAC). J Biomol Struct Dyn. 2016; 34:1946-1961
    • (2016) J Biomol Struct Dyn , vol.34 , pp. 1946-1961
    • Jia, J.1    Liu, Z.2    Xiao, X.3    Liu, B.4
  • 52
    • 85000869394 scopus 로고    scopus 로고
    • iPPBS-Opt: A Sequence-Based Ensemble Classifier for Identifying Protein-Protein Binding Sites by Optimizing Imbalanced Training Datasets
    • Jia J, Liu Z, Xiao X. iPPBS-Opt: A Sequence-Based Ensemble Classifier for Identifying Protein-Protein Binding Sites by Optimizing Imbalanced Training Datasets. Molecules. 2016; 21:95
    • (2016) Molecules , vol.21 , pp. 95
    • Jia, J.1    Liu, Z.2    Xiao, X.3
  • 53
    • 84926619444 scopus 로고    scopus 로고
    • Impacts of bioinformatics to medicinal chemistry
    • Chou KC. Impacts of bioinformatics to medicinal chemistry. Medicinal Chemistry. 2015; 11:218-234
    • (2015) Medicinal Chemistry , vol.11 , pp. 218-234
    • Chou, K.C.1
  • 54
    • 79951518208 scopus 로고    scopus 로고
    • Some remarks on protein attribute prediction and pseudo amino acid composition (50th Anniversary Year Review)
    • Chou KC. Some remarks on protein attribute prediction and pseudo amino acid composition (50th Anniversary Year Review). J Theor Biol. 2011; 273:236-247
    • (2011) J Theor Biol , vol.273 , pp. 236-247
    • Chou, K.C.1
  • 55
    • 34548606295 scopus 로고    scopus 로고
    • Review: Recent progresses in protein subcellular location prediction
    • Chou KC, Shen HB. Review: Recent progresses in protein subcellular location prediction. Anal Biochem. 2007; 370:1-16
    • (2007) Anal Biochem , vol.370 , pp. 1-16
    • Chou, K.C.1    Shen, H.B.2
  • 56
    • 72449203319 scopus 로고    scopus 로고
    • Pseudo amino acid composition and its applications in bioinformatics, proteomics and system biology
    • Chou KC. Pseudo amino acid composition and its applications in bioinformatics, proteomics and system biology. Current Proteomics. 2009; 6:262-274
    • (2009) Current Proteomics , vol.6 , pp. 262-274
    • Chou, K.C.1
  • 57
    • 84900463301 scopus 로고    scopus 로고
    • PseKNC: a flexible web-server for generating pseudo K-tuple nucleotide composition
    • Chen W, Lei TY, Jin DC. PseKNC: a flexible web-server for generating pseudo K-tuple nucleotide composition. Anal Biochem. 2014; 456:53-60
    • (2014) Anal Biochem , vol.456 , pp. 53-60
    • Chen, W.1    Lei, T.Y.2    Jin, D.C.3
  • 58
    • 84927712367 scopus 로고    scopus 로고
    • repDNA: a Python package to generate various modes of feature vectors for DNA sequences by incorporating user-defined physicochemical properties and sequence-order effects
    • Liu B, Liu F, Fang L, Wang X. repDNA: a Python package to generate various modes of feature vectors for DNA sequences by incorporating user-defined physicochemical properties and sequence-order effects. Bioinformatics. 2015; 31:1307-1309
    • (2015) Bioinformatics , vol.31 , pp. 1307-1309
    • Liu, B.1    Liu, F.2    Fang, L.3    Wang, X.4
  • 59
    • 84956620000 scopus 로고    scopus 로고
    • repRNA: a web server for generating various feature vectors of RNA sequences
    • Liu B, Liu F, Fang L. repRNA: a web server for generating various feature vectors of RNA sequences. Molecular Genetics and Genomics. 2016; 291:473-481
    • (2016) Molecular Genetics and Genomics , vol.291 , pp. 473-481
    • Liu, B.1    Liu, F.2    Fang, L.3
  • 60
    • 84979865452 scopus 로고    scopus 로고
    • Pse-in-One: a web server for generating various modes of pseudo components of DNA, RNA, and protein sequences
    • Liu B, Liu F, Wang X, Chen J, Fang L, Chou KC. Pse-in-One: a web server for generating various modes of pseudo components of DNA, RNA, and protein sequences Nucleic Acids Res. 2015; 43:W65-W71
    • (2015) Nucleic Acids Res , vol.43 , pp. W65-W71
    • Liu, B.1    Liu, F.2    Wang, X.3    Chen, J.4    Fang, L.5    Chou, K.C.6
  • 62
    • 84922387565 scopus 로고    scopus 로고
    • PseKNC-General: a cross-platform package for generating various modes of pseudo nucleotide compositions
    • Chen W, Zhang X, Brooker J, Lin H. PseKNC-General: a cross-platform package for generating various modes of pseudo nucleotide compositions. Bioinformatics. 2015; 31:119-120
    • (2015) Bioinformatics , vol.31 , pp. 119-120
    • Chen, W.1    Zhang, X.2    Brooker, J.3    Lin, H.4
  • 63
    • 0035874091 scopus 로고    scopus 로고
    • Prediction of protein cellular attributes using pseudo amino acid compositi
    • (Erratum: ibid, 2001, Vol44, 60)
    • Chou KC. Prediction of protein cellular attributes using pseudo amino acid composition. PROTEINS: Structure, Function, and Genetics (Erratum: ibid, 2001, Vol44, 60). 2001; 43:246-255
    • (2001) PROTEINS: Structure, Function, and Genetics , vol.43 , pp. 246-255
    • Chou, K.C.1
  • 64
    • 12744279642 scopus 로고    scopus 로고
    • Using amphiphilic pseudo amino acid composition to predict enzyme subfamily classes
    • Chou KC. Using amphiphilic pseudo amino acid composition to predict enzyme subfamily classes. Bioinformatics. 2005; 21:10-19
    • (2005) Bioinformatics , vol.21 , pp. 10-19
    • Chou, K.C.1
  • 65
    • 37549004451 scopus 로고    scopus 로고
    • PseAAC: a flexible web-server for generating various kinds of protein pseudo amino acid composition
    • Shen HB. PseAAC: a flexible web-server for generating various kinds of protein pseudo amino acid composition. Anal Biochem. 2008; 373:386-388
    • (2008) Anal Biochem , vol.373 , pp. 386-388
    • Shen, H.B.1
  • 66
    • 84875576158 scopus 로고    scopus 로고
    • propy: a tool to generate various modes of Chou's PseAAC
    • Cao DS, Xu QS, Liang YZ. propy: a tool to generate various modes of Chou's PseAAC. Bioinformatics. 2013; 29:960-962
    • (2013) Bioinformatics , vol.29 , pp. 960-962
    • Cao, D.S.1    Xu, Q.S.2    Liang, Y.Z.3
  • 67
    • 84895429516 scopus 로고    scopus 로고
    • PseAAC-General: Fast building various modes of general form of Chou's pseudo amino acid composition for large-scale protein datasets
    • Du P, Gu S, Jiao Y. PseAAC-General: Fast building various modes of general form of Chou's pseudo amino acid composition for large-scale protein datasets. International Journal of Molecular Sciences. 2014; 15:3495-3506
    • (2014) International Journal of Molecular Sciences , vol.15 , pp. 3495-3506
    • Du, P.1    Gu, S.2    Jiao, Y.3
  • 68
    • 33646023117 scopus 로고    scopus 로고
    • An Introduction to ROC Analysis
    • Fawcett JA. An Introduction to ROC Analysis. Pattern Recognition Letters. 2005; 27:861-874
    • (2005) Pattern Recognition Letters , vol.27 , pp. 861-874
    • Fawcett, J.A.1
  • 69
    • 0029157083 scopus 로고
    • Review: Prediction of protein structural classes
    • Chou KC, Zhang CT. Review: Prediction of protein structural classes. Crit Rev Biochem Mol Biol. 1995; 30:275-349
    • (1995) Crit Rev Biochem Mol Biol , vol.30 , pp. 275-349
    • Chou, K.C.1    Zhang, C.T.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.