Overview

Applications are invited for a funded PhD scholarship position at Monash University, Australia. The successful candidate will perform research in the junction of information visualisation, bioinformatics, and the Semantic Web. The candidate will work under the supervision of Prof. Falk Schreiber and Dr. Yuan-Fang Li at the Faculty of Information Technology, Monash University.

The Gene Ontology (GO) [1] is one of the most widely used biomedical ontologies. It comprehensively describes different aspects of genes and gene products under three broad categories, (1) biological process, (2) cellular components and (3) molecular functions. GO is currently being actively extended in the LEGO project to create a new annotation system to provide more extensible and expressive annotations.

This project aims to investigating novel visualisation techniques for GO-LEGO and its integration with the Systems Biology Graphical Notation (SBGN) [2]. The information can be seen as networks, and although there are some solutions for network layout, none is particularly tailered towards this application. Specifically we will investigate how domain knowledge captured in ontologies can assist in creating high-quality layouts.

[1] Ashburner, Michael, et al. “Gene Ontology: tool for the unification of biology.”Nature Genetics 25.1 (2000): 25-29.

[2] Le Nov??re et al. “The Systems Biology Graphical Notation” Nature Biotechnology 27 (2009): 735-741.

Company:

Monash University

Qualifications:

The successful student will have an excellent academic track record in computer science, bioinformatics or a related discipline. Applicants are expected to possess very good programming and analytical skills, be able to work independently as well as cooperatively with others. Research experiences in ontologies, knowledge representation, bioinformatics or information visualisation would be highly advantageous.

Candidates will be required to meet Monash entry requirements which include English-language skills. Details of eligibility requirements to undertake a PhD are available at http://www.monash.edu/migr/apply/eligibility/phd/ and http://infotech.monash.edu/research/degrees/prospective-students/entry-requirements.html.

Specific requirements:

The scholarship is tenable for three years, and extendable for up four years, dependent on satisfactory progress and availability of funding.

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About Monash University

Monash University was established in Melbourne, Australia in 1958, and is Australia's largest university, enrolling more than 63,000 students.

Today, Monash is a global university with campuses throughout Victoria; international campuses in Malaysia and South Africa; the Southeast University-Monash University Joint Graduate School in Suzhou, China; a joint research facility in Mumbai, India; an education and research centre in Prato, Italy, as well as a first-of-its-kind Alliance with the University of Warwick in the UK.

Monash University is a member of the prestigious "Group of Eight", a group composed of some of the most research-intensive universities in Australia.

Offering a large number of courses across numerous disciplines, Monash gives students the chance to choose from many study options including double degrees, part-time study, off-campus learning and alternative pathways.

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