Multi-label hierarchical classification of protein functions with artificial immune systems

Alves, Roberto T. and Delgado, Myriam and Freitas, Alex A. (2008) Multi-label hierarchical classification of protein functions with artificial immune systems. In: Advances in Bioinformatics and Computational Biology (Proc. 2008 Brazilian Symposium in Bioinformatics (BSB-2008)), Lecture Notes in Bioinformatics 5167, Aug 28-30, 2008, Santo Andre, Brazil. (The full text of this publication is not available from this repository)

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Official URL
http://dx.doi.org/10.1007/978-3-540-85557-6

Abstract

This work proposes two versions of an Artificial Immune System (AIS) - a relatively recent computational intelligence paradigm - for predicting protein functions described in the Gene Ontology (GO). The GO has functional classes (GO terms) specified in the form of a directed acyclic graph, which leads to a very challenging multi-label hierarchical classification problem where a protein can be assigned multiple classes (functions, GO terms) across several levels of the GO's term hierarchy. Hence, the proposed approach, called MHC-AIS (Multi-label Hierarchical Classification with an Artificial Immune System), is a sophisticated classification algorithm tailored to both multi-label and hierarchical classification. The first version of the MHC-AIS builds a global classifier to predict all classes in the application domain, whilst the second version builds a local classifier to predict each class. In both versions of the MHC-AIS the classifier is expressed as a set of IF-THEN classification rules, which have the advantage of representing comprehensible knowledge to biologist users. The two MHC-AIS versions are evaluated on a dataset of DNA-binding and ATPase proteins.

Item Type: Conference or workshop item (Paper)
Uncontrolled keywords: classification, data mining, artificial immune systems
Subjects: Q Science > QA Mathematics (inc Computing science) > QA 76 Software, computer programming,
Divisions: Faculties > Science Technology and Medical Studies > School of Computing > Applied and Interdisciplinary Informatics Group
Depositing User: Mark Wheadon
Date Deposited: 29 Mar 2010 12:12
Last Modified: 14 Jul 2014 12:38
Resource URI: http://kar.kent.ac.uk/id/eprint/24053 (The current URI for this page, for reference purposes)
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