Some remarks on protein attribute prediction and pseudo amino acid composition

DOI10.1016/j.jtbi.2010.12.024zbMath1405.92212OpenAlexW2034070267WikidataQ37822128 ScholiaQ37822128MaRDI QIDQ1670702

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

zbMATH Keywords

cross-validationPseAACfunctional domain modegene ontology modesequential evolution mode

Mathematics Subject Classification ID

Protein sequences, DNA sequences (92D20) Research exposition (monographs, survey articles) pertaining to biology (92-02)

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Uses Software

• Cell-PLoc
• PseAAC
• Memtype-2L
• ProtIdent
• SMART
• GPCR-2L
• Euk-PLoc
• Virus-ploc
• SubChlo
• Plant-mPLoc
• GPCR-GIA
• Quat-2L
• SecretP
• QuatIdent
• Pfam
• Gneg-mPLoc
• GPCR-CA
• EzyPred
• Euk-mPLoc
• Hum-mPLoc
• Hum-PLoc
• Gpos-PLoc

Cites Work

• Unnamed Item
• 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
• Prediction of protein structural classes by recurrence quantification analysis based on chaos game representation
• 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
• \(\gamma\)-turn types prediction in proteins using the two-stage hybrid neural discriminant model
• Multiclass cancer classification by support vector machines with class-wise optimized genes and probability estimates
• SubChlo: predicting protein subchloroplast locations with pseudo-amino acid composition and the evidence-theoretic \(K\)-nearest neighbor (ET-KNN) algorithm
• A network-QSAR model for prediction of genetic-component biomarkers in human colorectal cancer
• Geometry preserving projections algorithm for predicting membrane protein types
• Using the concept of Chou's pseudo amino acid composition for risk type prediction of human papillomaviruses
• Gneg-mPLoc: a top-down strategy to enhance the quality of predicting subcellular localization of Gram-negative bacterial proteins
• A classification-based prediction model of messenger RNA polyadenylation sites
• SecretP: identifying bacterial secreted proteins by fusing new features into Chou's pseudo-amino acid composition
• Prediction protein structural classes with pseudo-amino acid composition: approximate entropy and hydrophobicity pattern
• The modified Mahalanobis discriminant for predicting outer membrane proteins by using Chou's pseudo amino acid composition
• Predicting protein structural class based on multi-features fusion
• Enzymes/non-enzymes classification model complexity based on composition, sequence, 3D and topological indices
• Predicting protein structural classes with pseudo amino acid composition: an approach using geometric moments of cellular automaton image
• Predicting enzyme family classes by hybridizing gene product composition and pseudo-amino acid composition
• Predicting membrane protein type by functional domain composition and pseudo-amino acid composition
• Using stacked generalization to predict membrane protein types based on pseudo-amino acid composition
• Fuzzy KNN for predicting membrane protein types from pseudo-amino acid composition
• Pseudo amino acid composition and multi-class support vector machines approach for conotoxin superfamily classification
• Using pseudo-amino acid composition and support vector machine to predict protein structural class
• Prediction of apoptosis protein subcellular location using improved hybrid approach and pseudo-amino acid composition
• Using Chou's amphiphilic pseudo-amino acid composition and support vector machine for prediction of enzyme subfamily classes
• \(\gamma\)-Turn types prediction in proteins using the support vector machines
• Statistics of local complexity in amino acid sequences and sequence databases
• Nearest neighbor pattern classification

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