LEGO-based generalized set of two linear algebraic 3D bio-macro-molecular descriptors: theory and validation by QSARs

DOI10.1016/J.JTBI.2019.110039MaRDI QIDQ2335378zbMATH OpenOpenAlexWikidataFDO

Authors Yovani Marrero-Ponce, Julio E. Teran, Ernesto Contreras-Torres, César R. García-Jacas, Yunierkis Perez-Castillo, Néstor Cubillán, Facundo Pérez-Giménez, José R. Valdes-Martini

Publication date 14 November 2019

Published in Journal of Theoretical Biology (Search for Journal in Brave)

Full work available at URL https://doi.org/10.1016/j.jtbi.2019.110039

zbMATH Keywords

3D-protein descriptoraggregation operatoramino acid interactionfolding ratemachine learningmetricsnormalization procedureprotein structural classestwo-linear algebraic forms

Mathematics Subject Classification ID

Applications of statistics to biology and medical sciences; meta analysis (62P10) Computational methods for problems pertaining to biology (92-08) Protein sequences, DNA sequences (92D20)

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Cites work

• A Hooke's law-based approach to protein folding rate
• Bootstrap Technology and Applications
• How to build aggregation operators from data
• scientific article; zbMATH DE number 4074878 (Why is no real title available?)
• Novel 2D TOMOCOMD-CARDD molecular descriptors: atom-based stochastic and non-stochastic bilinear indices and their QSPR applications
• Novel 3D bio-macromolecular bilinear descriptors for protein science: predicting protein structural classes
• Novel global and local 3D atom-based linear descriptors of the Minkowski distance matrix: theory, diversity-variability analysis and QSPR applications
• Prediction protein structural classes with pseudo-amino acid composition: approximate entropy and hydrophobicity pattern
• Using Chou's amphiphilic pseudo-amino acid composition and support vector machine for prediction of enzyme subfamily classes
• Using LogitBoost classifier to predict protein structural classes

Cited in

(4)

• Novel 3D bio-macromolecular bilinear descriptors for protein science: predicting protein structural classes
• MuLiMs-MCoMPAs
• Novel matrix descriptor for determination of the connectivity of secondary structure segments in proteins. Analysis of general properties using graph theory
• Novel global and local 3D atom-based linear descriptors of the Minkowski distance matrix: theory, diversity-variability analysis and QSPR applications

Describes a project that uses

Uses Software

• WEKA
• LogitBoost
• ToMoCoMD-CARDD
• QuBiLs-MIDAS
• PROFEAT
• PseAAC-Builder
• FoldRate

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