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Reducing the n-gram feature space of class C GPCRs to subtype-discriminating patterns

König, Caroline ; Alquezar, René ; Vellido, Alfredo ; Giraldo, Jesús

Journal of Integrative Bioinformatics - JIB (ISSN 1613-4516)


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Abstract:
G protein-coupled receptors (GPCRs) are a large and heterogeneous superfamily of receptors that are key cell players for their role as extracellular signal transmitters. Class C GPCRs, in particular, are of great interest in pharmacology. The lack of knowledge about their full 3-D structure prompts the use of their primary amino acid sequences for the construction of robust classifiers, capable of discriminating their different subtypes. In this paper, we investigate the use of feature selection techniques to build Support Vector Machine (SVM)-based classification models from selected receptor subsequences described as n-grams. We show that this approach to classification is useful for finding class C GPCR subtype-specific motifs.


Institution: Faculty of Technology, Research Groups in Informatics
DDC classification: Data processing, computer science, computer systems

Suggested Citation:
König, Caroline ; Alquezar, René ; Vellido, Alfredo ; Giraldo, Jesús  (2014)  Reducing the n-gram feature space of class C GPCRs to subtype-discriminating patterns. Journal of Integrative Bioinformatics - JIB (ISSN 1613-4516)

Online-Journal: http://journal.imbio.de/article.php?aid=254
URL: http://biecoll.ub.uni-bielefeld.de/volltexte/2014/5346



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