Discovering subtype specific n-gram motifs in class C GPCR N-termini

Caroline König*, René Alquézar, Alfredo Vellido, Jesús Giraldo

*Corresponding author for this work

Research output: Other contribution

Abstract

G Protein-Coupled Receptors are a family of cell membrane proteins, whose class C is a current main target for drug development. Their primary sequences are studied as a source of information for the characterization of their behaviour. In previous research, different alignment-free sequence transformations were explored as the basis for the supervised discrimination of the various class C subtypes using Support Vector Machines. We also investigated an alignment-free sequence transformation based on n-gram protein motifs, under the hypothesis that the sequences' extra-cellular N-terminus domain could suffice to retain most of the subtype-discrimination capabilities of the complete receptor, and that a parsimonious selection of n-grams would be responsible for such classification success. In the current study, these previous results are extended by investigating a different classification procedure that now employs a subtype-vs-all the rest of subtypes approach, shifting towards the selection of those sequence motifs that distinguish each class C subtype from the rest. The reported results indicate the adequacy of this new approach, both in terms of discrimination ability and motif selection parsimony.

Original languageEnglish
Number of pages10
ISBN (Electronic)9781614998051
DOIs
Publication statusPublished - 2017

Publication series

NameFrontiers in Artificial Intelligence and Applications
Volume300
ISSN (Print)0922-6389

Keywords

  • Feature selection
  • G Protein coupled receptors
  • Pharmaco-proteomics
  • Support vector machines

Fingerprint

Dive into the research topics of 'Discovering subtype specific n-gram motifs in class C GPCR N-termini'. Together they form a unique fingerprint.

Cite this