ontology information retreival system

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Introduction Motivation & Objectives Tools Used Architecture Conclusion Bibliography

ONTOLOGICAL FRAMEWORK FOR MEDICAL

INFORMATION RETRIEVAL AND

INFERENCING MECHANISM

Absheer K.KAshwin Thomas

Shafeeque M.K.M

Siju Pavithran

Varghese K Renny

Project Guide : Dr.K.Najeeb

Government Engineering College

Sreekrishnapuram Palakkad

September 6, 2010
http://find/http://goback/


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CONTENTS

1 Introduction

2 Motivation & Objectives

3 Tools Used

4 Architecture

5 Conclusion

6 Bibliography


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INTRODUCTION

The basic motivation behind the project is to design aknowledge based expert system for rural areas.

In the villages, where people may be lacking basic medicalamenities, this system can be used effectively.


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INTRODUCTION Contd.

The ontological framework can be used to efficiently give abasic diagnosis about the disease

The system is capable of deducing possible diseases from thesymptoms

Also, an idea can be obtained about the treatment relatedissues such as medicines and concerned doctors

expert systems for doctors and practitioners.

I d i M i i & Obj i T l U d A hi C l i Bibli h


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BASIC TERMINOLOGY

Ontologyexplicit specification of a conceptualization

example given by Genesereth and Nilsson(a, b, c, d, e, on,

above, clear, table)

In Computer Science and Information Science,ontology definesset of representational premitives with which to model adomain of knowledge or discourse.

I t d ti M ti ti & Obj ti T l U d A hit t C l i Bibli h


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Ontology Contd.

independent of data modelling strategy or implementation.It is a rigorous and exhaustive organisation of some knowledgedomain that is usually hierarchical and contains all therelevant entities and their relations



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OWLThe Web Ontology Language(OWL) is a family of knowledgerepresentation languages for authoring ontologies, and isendorsed by the World Wide Web Consortium.

The OWL is intended to provide a language that can be usedto describe the classes and relationship between entities thatare inherent in Web documents and applications.



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OWL contd.

An OWL Ontology contains:

Classes +Class HierarchyRelations between the classes(inheritance , disjoints etc)

Restrictions on the properties(types, cardinality etc)

Individuals

types of OWL.



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MOTIVATION FOR THE PROJECT

Ontologies are more general and reusable than traditional data

modelsThey are easily shareable

They are intended for multiple purposes, goals and users

Take stand on the semantics of the concepts (as opposed to

mere structure and integrity)



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OBJECTIVES OF THE PROJECT

Design and develop an ontology for a Medical domain.

Propose a system architecture for retrieving information andenrichment of the ontology.

Retrieve the results in a way that can be used for furtherprocesses



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& j g p y

LITERATURE REVIEW

Recognizing and filtering web documents using an Ontology

Authors:Abadi, R.M.B, Yektaie, M.H., Abbasi, M.Azad University Of Oloum va Tahghighat, Ahwaz, IranThis paper puts to evaluation the extent of relationshipbetween a semi structured HTML and ontology using somestatistical techniques.



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j g p y

Automatic ontology-based knowledge extraction from Webdocuments

Authors:Alani, H., Sanghee Kim, Millard D.E., Hall W, Lewis,P.H., Shadbolt N.R

Southampton University UKSpecialized knowledge services require tools that can searchand extract specific knowledge directly from unstructured texton the Web.This paper links a knowledge extraction tool withan ontology to achieve continuous knowledge support and

guide information extraction



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Active User-Based and Ontology-Based Web Log DataPreprocessing for Web Usage Mining

Authors:Natheer Khansawneh, Jordan University of Science

and Technology, JordanChien-Chung Chan, University of Akron, USUser and session identification are two major steps in web logdata for web usage mining. This paper introduces a fast activeuser-based user identification algorithm with time complexityO(n)



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Building Semantic Rich Model for Web Documents UsingDomain Ontology

Authors: ShahrulAzmanNoah, LailatulqadriZakaria,ArifahCheAlhadi,SaidahSaad,

National University of MalaysiaThe paper proposes an approach meant to assist inconstructing semantic document models using naturallanguage analysis technique and a domain specificontology,which simplifies the working of search engines and

other such applications



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TOOLS USED

Protege

Jena API

Pellet API

SPARQL



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Protege

Protege is a free , open source platform that provides agrowing user community with a suite of tools to construct

domain models and knowledge based applications withontologies

Protege has an open architecture that allows programmers tointegrate plugins

The plugins can appear as separate tabs, specific user

interface components(widgets), or perform any other specifiedoperation on the user model



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Protege Contd.

The Protege platform supports two main ways of modellingontologies:

The Protege-Frames editor enables users to build and populate

ontologies that are frame-based, in accordance with the OpenKnowledge Base Connectivity protocol (OKBC). In this model,an ontology consists of a set of classes organized in asubsumption hierarchy to represent a domains salientconcepts.

The Protege-OWL editor enables users to build ontologies forthe Semantic Web, in particular in the W3Cs Web OntologyLanguage.



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Protege Features

Extension to handle OWL ontologies

Loading and saving OWL files and databases

Graphical editors for class expressions

Integrated reasoner to ensure consistency



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JENA

It is an open source semantic web framework written in Java

Jena is composed of:RDF processing APIOWL processing APIA rule- based inference engineSPARQL query engine

In-memory and persistent storage.



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JENA Contd.

Can parse,create and search RDF models

ModelFactory for creating models. So that application code

remains independent of the implementation, it is best if ituses interfaces wherever possible, not specific classimplementations.

JENA has a special model class called OntModel

This can be used to derive meaningful relationship that themodel does not express directly



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Pellet API

Pellet is an open source Java based OWL DL reasoner

It can be used in conjunction with both Jena and OWL API

libraries and also provides a DIG interfaceprovides functionalities to see the species validation, checkconsistency of ontologies, classify the taxonomy

Special features

Ontology analysis and repairData type reasoningRule integration



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SPARQL

Simple Protocol And RDF Query Language

SPARQL query consist of triplepatterns,disjunctions,conjunctions and optional patterns

SPARQL queries are created and executed with Jena viaclasses in the com.hp.hpl.jena.query package

SPARQL is data oriented in that it only queries information

held in the models,there is no inference in the query language



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PLATFORM USED

Linux

Java runtime environment



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ARCHITECTURE



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The architecture consists of 4 main modules. Theyare:-

Hierarchy viewing module

Consistency checking module

Query processing module

Enrichment module



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HIERARCHY VIEWING MODULE

This module shows the user the hierarchical structure of theontology

Different axioms like the classes, objects and data propertiesare also displayed



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CONSISTENCY CHECKING MODULE

This module makes use of a reasoner like pellet,racer etc tocheck the consistency status of the domain ontology

Consistency checking module has to be activated while theuser enriches the ontology, to ensure validity of the ontology



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Query processing module

Query processing can be handled in two ways

User can enter the SPARQL query directlySPARQL query generation

Information retrieval can also be done by node searching



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ENRICHMENT MODULE

This module allows user to add new information to the

domain ontologyWe have provided two options to enrich the ontology:

User may delete an existing classUser may add a valid class



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CONCLUSION

The project puts emphasis on some valuable points in the fieldof patient oriented medical information system

Since the application is aimed at the general public, the

interface has a simple and easy-to-understand designIt is also possible to add newer ontologies to theapplication(from websites such as swoogle.com) directly toour application

System runs through java run time environment that isplatform independent.

System implements disambiguation feature.



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FUTURE ENHANCEMENTS

Developing a Semantic search engine utilizing severalheterogeneous open source technologies

Designing an Auto enriching Ontology, which is capable ofmaking transitive deductions, based on user input

Designing an online ontology knowledge based system,capable of sharing and enriching information by using suitable

networking among them.



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FUTURE ENHANCEMENTS Contd.

User can enter queries in XML format and also addinformation as XML file.

It is possible to generate XML file so that it can be used asinput for further processing.

Caching of query is yet another feature that can beimplemented



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BIBLIOGRAPHY

Natalya F. Noy, Deborah L McGuinness, OntologyDevelopment 101: A Guide to Creating your own Ontology

Matthew Horridge, Holger Knublauch, Alan Rector, Robert

Stevens and Chris Roe: A Practical guide to building OWLOntologies Using the Protg OWL Plugin

Herbert Schildt : Java 2- The Complete Reference, TataMcGraw Hill

Amandeep Sidhu, Tharam S. Dillon, Elizabeth Chang,Baldeep Sidhu:Medical Ontology Development using OWL,OWLED, Volume 188 of CEUR Workshop proceedings,CEUR-WS.org, 2005



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http://protege.stanford.edu/

http://jena.sourceforge.net/ARQ/Tutorial

http://www.w3.org/TR/rdf-sparql-query/

http://www.swoogle.com/

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