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SVM-based classification of class C GPCRs from alignment-free physicochemical transformations of their sequences
König, Caroline; Cruz Barbosa, Raúl; Alquézar Mancho, René; Vellido Alcacena, Alfredo
Universitat Politècnica de Catalunya. Departament de Llenguatges i Sistemes Informàtics; Universitat Politècnica de Catalunya. SOCO - Soft Computing
G protein-coupled receptors (GPCRs) have a key function in regulating the function of cells due to their ability to transmit extracelullar signals. Given that the 3D structure and the functionality of most GPCRs is unknown, there is a need to construct robust classification models based on the analysis of their amino acid sequences for protein homology detection. In this paper, we describe the supervised classification of the different subtypes of class C GPCRs using support vector machines (SVMs). These models are built on different transformations of the amino acid sequences based on their physicochemical properties. Previous research using semi-supervised methods on the same data has shown the usefulness of such transformations. The obtained classification models show a robust performance, as their Matthews correlation coefficient is close to 0.91 and their prediction accuracy is close to 0.93.
Àrees temàtiques de la UPC::Informàtica::Aplicacions de la informàtica::Bioinformàtica
Bioinformatics
Machine learning
G-Protein coupled receptors
Homology
Pharmaco-proteomics
Supervised learning
Support vector machines
Transformation
Bioinformàtica
Aprenentatge automàtic
info:eu-repo/semantics/submittedVersion
info:eu-repo/semantics/conferenceObject
Springer Berlin Heidelberg
         

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