Prediction of structural classes for protein sequences and domains--impact of prediction algorithms, sequence representation and homology, and test procedures on accuracy

DOI10.1016/J.PATCOG.2006.02.014MaRDI QIDQ850136zbMATH OpenOpenAlexWikidataFDO

Authors Łukasz A. Kurgan, Leila Homaeian

Publication date 15 November 2006

Published in Pattern Recognition (Search for Journal in Brave)

Full work available at URL https://doi.org/10.1016/j.patcog.2006.02.014

zbMATH Keywords

predictionmachine learninghomologyprotein structural classSCOPsecondary protein structure

Mathematics Subject Classification ID

Learning and adaptive systems in artificial intelligence (68T05) Pattern recognition, speech recognition (68T10)

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Cites work

• Approximation, dimension reduction, and nonconvex optimization using linear superpositions of Gaussians
• Improvements to Platt's SMO Algorithm for SVM Classifier Design
• Random forests
• Ridge Estimators in Logistic Regression
• Support vector machines for prediction of protein domain structural class
• Support vector machines for protein fold class prediction
• Wrappers for feature subset selection

Cited in

(17)

• Protein fold recognition by alignment of amino acid residues using kernelized dynamic time warping
• Variable predictive model based classification algorithm for effective separation of protein structural classes
• New methods for the prediction and classification of protein domains.
• Novel hybrid method for the evaluation of parameters contributing in determination of protein structural classes
• A comment on ``Prediction of protein structural classes by a new measure of information discrepancy
• Homology modeling of membrane proteins: a critical assessment
• A protein structural classes prediction method based on PSI-BLAST profile
• Prediction of protein structure classes by incorporating different protein descriptors into general Chou's pseudo amino acid composition
• Predicting protein structural classes with pseudo amino acid composition: an approach using geometric moments of cellular automaton image
• Predict potential drug targets from the ion channel proteins based on SVM
• Prediction of protein structural classes by recurrence quantification analysis based on chaos game representation
• Prediction protein structural classes with pseudo-amino acid composition: approximate entropy and hydrophobicity pattern
• Novel scales based on hydrophobicity indices for secondary protein structure
• Improving the prediction accuracy of protein structural class: approached with alternating word frequency and normalized Lempel-Ziv complexity
• A high-accuracy protein structural class prediction algorithm using predicted secondary structural information
• 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 protein structure classes using hybrid space of multi-profile Bayes and bi-gram probability feature spaces

Describes a project that uses

Uses Software

• C4.5

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