Semantically aware hierarchical Bayesian network model for knowledge discovery in data : an ontology-based framework

Al Harbi, HYM 2017, Semantically aware hierarchical Bayesian network model for knowledge discovery in data : an ontology-based framework , PhD thesis, University of Salford.

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Abstract

Several mining algorithms have been invented over the course of recent decades. However, many of the invented algorithms are confined to generating frequent patterns and do not illustrate how to act upon them. Hence, many researchers have argued that existing mining algorithms have some limitations with respect to performance and workability.

Quantity and quality are the main limitations of the existing mining algorithms. While quantity states that the generated patterns are abundant, quality indicates that they cannot be integrated into the business domain seamlessly. Consequently, recent research has suggested that the limitations of the existing mining algorithms are the result of treating the mining process as an isolated and autonomous data-driven trial-and-error process and ignoring the domain knowledge. Accordingly, the integration of domain knowledge into the mining process has become the goal of recent data mining algorithms. Domain knowledge can be represented using various techniques. However, recent research has stated that ontology is the natural way to represent knowledge for data mining use. The structural nature of ontology makes it a very strong candidate for integrating domain knowledge with data mining algorithms. It has been claimed that ontology can play the following roles in the data mining process:

• Bridging the semantic gap.

• Providing prior knowledge and constraints.

• Formally representing the DM results.

Despite the fact that a variety of research has used ontology to enrich different tasks in the data mining process, recent research has revealed that the process of developing a framework that systematically consolidates ontology and the mining algorithms in an intelligent mining environment has not been realised. Hence, this thesis proposes an automatic, systematic and flexible framework that integrates the Hierarchical Bayesian Network (HBN) and domain ontology.

The ultimate aim of this thesis is to propose a data mining framework that implicitly caters for the underpinning domain knowledge and eventually leads to a more intelligent and accurate mining process. To a certain extent the proposed mining model will simulate the cognitive system in the human being.

The similarity between ontology, the Bayesian Network (BN) and bioinformatics applications establishes a strong connection between these research disciplines. This similarity can be summarised in the following points:

• Both ontology and BN have a graphical-based structure.

• Biomedical applications are known for their uncertainty. Likewise, BN is a powerful tool for reasoning under uncertainty.

• The medical data involved in biomedical applications is comprehensive and ontology is the right model for representing comprehensive data.

Hence, the proposed ontology-based Semantically Aware Hierarchical Bayesian Network (SAHBN) is applied to eight biomedical data sets in the field of predicting the effect of the DNA repair gene in the human ageing process and the identification of hub protein. Consequently, the performance of SAHBN was compared with existing Bayesian-based classification algorithms. Overall, SAHBN demonstrated a very competitive performance.

The contribution of this thesis can be summarised in the following points.

• Proposed an automatic, systematic and flexible framework to integrate ontology and the HBN. Based on the literature review, and to the best of our knowledge, no such framework has been proposed previously.

• The complexity of learning HBN structure from observed data is significant. Hence, the proposed SAHBN model utilized the domain knowledge in the form of ontology to overcome this challenge.

• The proposed SAHBN model preserves the advantages of both ontology and Bayesian theory. It integrates the concept of Bayesian uncertainty with the deterministic nature of ontology without extending ontology structure and adding probability-specific properties that violate the ontology standard structure.

• The proposed SAHBN utilized the domain knowledge in the form of ontology to define the semantic relationships between the attributes involved in the mining process, guides the HBN structure construction procedure, checks the consistency of the training data set and facilitates the calculation of the associated conditional probability tables (CPTs).

• The proposed SAHBN model lay out a solid foundation to integrate other semantic relations such as equivalent, disjoint, intersection and union.

Item Type: Thesis (PhD)
Schools: Schools > School of Computing, Science and Engineering
Depositing User: Hasanein Yaarub Mohammed Al Harbi
Date Deposited: 19 Jan 2018 13:38
Last Modified: 19 Jan 2018 13:38
URI: http://usir.salford.ac.uk/id/eprint/43293

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