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Title:
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Exploratory visualization of misclassified GPCRs from their transformed unaligned sequences using manifold learning techniques
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Author:
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Cárdenas Domínguez, Martha Ivón; Vellido Alcacena, Alfredo; König, Caroline; Alquézar Mancho, René; Giraldo Arjonilla, Jesús
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Other authors:
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Universitat Politècnica de Catalunya. Departament de Ciències de la Computació; Universitat Politècnica de Catalunya. SOCO - Soft Computing; Universitat Politècnica de Catalunya. VIS - Visió Artificial i Sistemes Intel.ligents |
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Abstract:
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Class C G-protein-coupled receptors (GPCRs) are cell membrane proteins of great relevance to biology and pharmacology. Previous
research has revealed an upper boundary on the accuracy that can be
achieved in their classification into subtypes from the unaligned transformation of their sequences. To investigate this, we focus on sequences that have been misclassified using supervised methods. These are visualized, using a nonlinear dimensionality reduction technique and phylogenetic trees, and then characterized against the rest of the data and, particularly, against the rest of cases of their own subtype. This should help to discriminate between different types of misclassification and to build hypotheses about database quality problems and the extent to which GPCR sequence transformations limit subtype discriminability. The reported experiments provide a proof of concept for the proposed method. |
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Subject(s):
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-Àrees temàtiques de la UPC::Informàtica::Aplicacions de la informàtica::Bioinformàtica
-Proteomics
-G-protein coupled receptors
-Data visualization
-Manifold learning
-Unaligned sequence analysis
-Phylogenetic trees
-Proteòmica |
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Rights:
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Document type:
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Article - Published version
Conference Object |
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Published by:
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Copicentro Granada
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