Some remarks on protein attribute prediction and pseudo amino acid composition
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Publication:1670702
DOI10.1016/J.JTBI.2010.12.024zbMATH Open1405.92212OpenAlexW2034070267WikidataQ37822128 ScholiaQ37822128MaRDI QIDQ1670702FDOQ1670702
Authors: Kuo-Chen Chou 
Publication date: 6 September 2018
Published in: Journal of Theoretical Biology (Search for Journal in Brave)
Full work available at URL: http://europepmc.org/articles/pmc7125570
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Protein sequences, DNA sequences (92D20) Research exposition (monographs, survey articles) pertaining to biology (92-02)
Cites Work
- SubChlo: predicting protein subchloroplast locations with pseudo-amino acid composition and the evidence-theoretic \(K\)-nearest neighbor (ET-KNN) algorithm
- Nearest neighbor pattern classification
- Title not available (Why is that?)
- Predicting protein fold pattern with functional domain and sequential evolution information
- Use of fuzzy clustering technique and matrices to classify amino acids and its impact to Chou's pseudo amino acid composition
- Using the concept of Chou's pseudo amino acid composition for risk type prediction of human papillomaviruses
- The modified Mahalanobis discriminant for predicting outer membrane proteins by using Chou's pseudo amino acid composition
- Predicting DNA- and RNA-binding proteins from sequences with kernel methods
- Using the augmented Chou's pseudo amino acid composition for predicting protein submitochondria locations based on auto covariance approach
- SecretP: identifying bacterial secreted proteins by fusing new features into Chou's pseudo-amino acid composition
- Using Chou's amphiphilic pseudo-amino acid composition and support vector machine for prediction of enzyme subfamily classes
- Predicting protein structural classes with pseudo amino acid composition: an approach using geometric moments of cellular automaton image
- Prediction of apoptosis protein subcellular location using improved hybrid approach and pseudo-amino acid composition
- Multiclass cancer classification by support vector machines with class-wise optimized genes and probability estimates
- Gneg-mPLoc: a top-down strategy to enhance the quality of predicting subcellular localization of Gram-negative bacterial proteins
- Prediction protein structural classes with pseudo-amino acid composition: approximate entropy and hydrophobicity pattern
- Prediction of protein structural classes by recurrence quantification analysis based on chaos game representation
- Enzymes/non-enzymes classification model complexity based on composition, sequence, 3D and topological indices
- Predicting enzyme family classes by hybridizing gene product composition and pseudo-amino acid composition
- Using stacked generalization to predict membrane protein types based on pseudo-amino acid composition
- Pseudo amino acid composition and multi-class support vector machines approach for conotoxin superfamily classification
- Statistics of local complexity in amino acid sequences and sequence databases
- A classification-based prediction model of messenger RNA polyadenylation sites
- \(\gamma\)-turn types prediction in proteins using the two-stage hybrid neural discriminant model
- A network-QSAR model for prediction of genetic-component biomarkers in human colorectal cancer
- Predicting protein structural class based on multi-features fusion
- Fuzzy KNN for predicting membrane protein types from pseudo-amino acid composition
- Using pseudo-amino acid composition and support vector machine to predict protein structural class
- \(\gamma\)-Turn types prediction in proteins using the support vector machines
- Geometry preserving projections algorithm for predicting membrane protein types
- Predicting membrane protein type by functional domain composition and pseudo-amino acid composition
Cited In (only showing first 100 items - show all)
- MemHyb: predicting membrane protein types by hybridizing SAAC and PSSM
- Sequence-based discrimination of protein-RNA interacting residues using a probabilistic approach
- Naïve Bayes classifier with feature selection to identify phage virion proteins
- VR-BFDT: a variance reduction based binary fuzzy decision tree induction method for protein function prediction
- iCDI-PseFpt: identify the channel-drug interaction in cellular networking with PseAAC and molecular fingerprints
- A protein structural classes prediction method based on PSI-BLAST profile
- Alignment free comparison: similarity distribution between the DNA primary sequences based on the shortest absent word
- A Hooke's law-based approach to protein folding rate
- Predicting protein submitochondrial locations by incorporating the pseudo-position specific scoring matrix into the general Chou's pseudo-amino acid composition
- Predicting protein subchloroplast locations with both single and multiple sites via three different modes of Chou's pseudo amino acid compositions
- A method to distinguish between lysine acetylation and lysine methylation from protein sequences
- Predicting plant protein subcellular multi-localization by Chou's PseAAC formulation based multi-label homolog knowledge transfer learning
- Elman RNN based classification of proteins sequences on account of their mutual information
- Annotating the protein-RNA interaction sites in proteins using evolutionary information and protein backbone structure
- Comprehensive comparative analysis and identification of RNA-binding protein domains: multi-class classification and feature selection
- Predicting Golgi-resident protein types using pseudo amino acid compositions: approaches with positional specific physicochemical properties
- An estimator for local analysis of genome based on the minimal absent word
- Comparison of genomic data via statistical distribution
- Identifying 5-methylcytosine sites in RNA sequence using composite encoding feature into Chou's PseKNC
- IMem-2LSAAC: a two-level model for discrimination of membrane proteins and their types by extending the notion of SAAC into Chou's pseudo amino acid composition
- Predicting membrane protein types by incorporating a novel feature set into Chou's general PseAAC
- Highly accurate prediction of protein self-interactions by incorporating the average block and PSSM information into the general PseAAC
- Machine learning approaches for discrimination of extracellular matrix proteins using hybrid feature space
- Identify five kinds of simple super-secondary structures with quadratic discriminant algorithm based on the chemical shifts
- mLASSO-Hum: a LASSO-based interpretable human-protein subcellular localization predictor
- iLM-2L: a two-level predictor for identifying protein lysine methylation sites and their methylation degrees by incorporating K-gap amino acid pairs into Chou's general PseAAC
- Prediction of protein structure classes by incorporating different protein descriptors into general Chou's pseudo amino acid composition
- Using weighted features to predict recombination hotspots in \textit{Saccharomyces cerevisiae}
- Classification of membrane protein types using voting feature interval in combination with Chou's pseudo amino acid composition
- Robust feature generation for protein subchloroplast location prediction with a weighted GO transfer model
- A novel canonical dual computational approach for prion AGAAAAGA amyloid fibril molecular modeling
- Identify Gram-negative bacterial secreted protein types by incorporating different modes of PSSM into Chou's general PseAAC via Kullback-Leibler divergence
- Classify vertebrate hemoglobin proteins by incorporating the evolutionary information into the general PseAAC with the hybrid approach
- Characterization of BioPlex network by topological properties
- Precision assessment of some supervised and unsupervised algorithms for genotype discrimination in the genus \textit{pisum} using SSR molecular data
- pSuc-Lys: predict lysine succinylation sites in proteins with PseAAC and ensemble random forest approach
- Identification of protein subcellular localization via integrating evolutionary and physicochemical information into Chou's general PseAAC
- Predicting structural classes of proteins by incorporating their global and local physicochemical and conformational properties into general Chou's PseAAC
- A feature extraction technique using bi-gram probabilities of position specific scoring matrix for protein fold recognition
- Predicting membrane protein types by incorporating protein topology, domains, signal peptides, and physicochemical properties into the general form of Chou's pseudo amino acid composition
- Prediction of protein subcellular localization with oversampling approach and Chou's general PseAAC
- Phogly-PseAAC: prediction of lysine phosphoglycerylation in proteins incorporating with position-specific propensity
- R3P-Loc: a compact multi-label predictor using ridge regression and random projection for protein subcellular localization
- Multi-kernel transfer learning based on Chou's PseAAC formulation for protein submitochondria localization
- Prediction of Golgi-resident protein types using general form of Chou's pseudo-amino acid compositions: approaches with minimal redundancy maximal relevance feature selection
- CE-PLoc: An ensemble classifier for predicting protein subcellular locations by fusing different modes of pseudo amino acid composition
- Discriminate protein decoys from native by using a scoring function based on ubiquitous phi and psi angles computed for all atom
- Predicting Gram-positive bacterial protein subcellular localization based on localization motifs
- Sequence-dependent prediction of recombination hotspots in \textit{Saccharomyces cerevisiae}
- GOASVM: a subcellular location predictor by incorporating term-frequency gene ontology into the general form of Chou's pseudo-amino acid composition
- Predicting DNA binding proteins using support vector machine with hybrid fractal features
- Discrimination of acidic and alkaline enzyme using Chou's pseudo amino acid composition in conjunction with probabilistic neural network model
- Prediction of \(\beta\)-lactamase and its class by Chou's pseudo-amino acid composition and support vector machine
- Chou's pseudo amino acid composition improves sequence-based antifreeze protein prediction
- Gram-positive and Gram-negative protein subcellular localization by incorporating evolutionary-based descriptors into Chou's general PseAAC
- A two-stage SVM method to predict membrane protein types by incorporating amino acid classifications and physicochemical properties into a general form of Chou's PseAAC
- Accurate prediction of protein structural classes by incorporating predicted secondary structure information into the general form of Chou's pseudo amino acid composition
- Prediction of posttranslational modification sites from amino acid sequences with kernel methods
- RBSURFpred: modeling protein accessible surface area in real and binary space using regularized and optimized regression
- NucPosPred: predicting species-specific genomic nucleosome positioning via four different modes of general PseKNC
- BlaPred: predicting and classifying \(\beta\)-lactamase using a 3-tier prediction system via Chou's general PseAAC
- pLoc\_bal-mGneg: predict subcellular localization of Gram-negative bacterial proteins by quasi-balancing training dataset and general PseAAC
- iRNA-PseKNC(2methyl): identify RNA 2'-O-methylation sites by convolution neural network and Chou's pseudo components
- Predicting protein-protein interactions by fusing various Chou's pseudo components and using wavelet denoising approach
- \textbf{iLoc-Virus}: a multi-label learning classifier for identifying the subcellular localization of virus proteins with both single and multiple sites
- BacPP: bacterial promoter prediction -- a tool for accurate sigma-factor specific assignment in enterobacteria
- Predicting apoptosis protein subcellular localization by integrating auto-cross correlation and PSSM into Chou's PseAAC
- Predicting mycobacterial proteins subcellular locations by incorporating pseudo-average chemical shift into the general form of Chou's pseudo amino acid composition
- Fu-SulfPred: identification of protein S-sulfenylation sites by fusing forests via Chou's general PseAAC
- Distribution bias of the sequence matching between exons and introns in exon joint and EJC binding region in \textit{C. elegans}
- Predicting S-nitrosylation proteins and sites by fusing multiple features
- Identification of hormone binding proteins based on machine learning methods
- Identifying N\(^6\)-methyladenosine sites using extreme gradient boosting system optimized by particle swarm optimizer
- SPrenylC-PseAAC: a sequence-based model developed via Chou's 5-steps rule and general PseAAC for identifying S-prenylation sites in proteins
- Dforml(KNN)-PseAAC: detecting formylation sites from protein sequences using K-nearest neighbor algorithm via Chou's 5-step rule and pseudo components
- Prediction of protein-protein interaction sites using patch-based residue characterization
- A two-layer classification framework for protein fold recognition
- Using protein granularity to extract the protein sequence features
- Prediction of interface residue based on the features of residue interaction network
- DNA-binding protein prediction based on deep transfer learning
- Bi-PSSM: position specific scoring matrix based intelligent computational model for identification of mycobacterial membrane proteins
- Efficacy of function specific 3D-motifs in enzyme classification according to their EC-numbers
- A QSPR-like model for multilocus genotype networks of \textit{Fasciola hepatica} in Northwest Spain
- Improving the prediction accuracy of protein structural class: approached with alternating word frequency and normalized Lempel-Ziv complexity
- A Novel Fast Approach for Protein Classification and Evolutionary Analysis
- A new hybrid fractal algorithm for predicting thermophilic nucleotide sequences
- Optimal atomic-resolution structures of prion AGAAAAGA amyloid fibrils
- Knowledge-based virtual screening of HLA-A*0201-restricted CD8\(^+\) T-cell epitope peptides from herpes simplex virus genome
- Self-similarity analysis of eubacteria genome based on weighted graph
- Two-intermediate model to characterize the structure of fast-folding proteins
- A segmented principal component analysis -- regression approach to QSAR study of peptides
- RFCRYS: sequence-based protein crystallization propensity prediction by means of random forest
- Studies on the rules of \(\beta\)-strand alignment in a protein \(\beta\)-sheet structure
- Disease embryo development network reveals the relationship between disease genes and embryo development genes
- \textit{In vitro} transcriptomic prediction of hepatotoxicity for early drug discovery
- Analysis of codon use features of stearoyl-acyl carrier protein desaturase gene in \textit{Camellia sinensis}
- Discriminating bioluminescent proteins by incorporating average chemical shift and evolutionary information into the general form of Chou's pseudo amino acid composition
- Interrogating noise in protein sequences from the perspective of protein-protein interactions prediction
- An effective haplotype assembly algorithm based on hypergraph partitioning
- Transmission of intra-cellular genetic information: a system proposal
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