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Innovative Bioinformatics Pipeline Development for Microbiota Analysis


Project Description

Recent advances in metagenomics, particularly long-read sequencing, are delivering a wealth of new and detailed community level profiling data.

You will join an established research environment for bioinformatics, and will focus on developing and applying exciting new methodologies for long-read sequencing based metagenomic analyses. Your PhD will be instrumental to the cluster, underpinning the work of the other cluster students.

The University of Hull is pioneering the application of this technology and within your PhD you will develop essential tools and pipelines for sophisticated analysis of large scale microbiome data sets.

Using the University’s high performance computer (VIPER) you will develop novel quantitative approaches and test the success of evolutionary and ecological theory (a specialism of Dr Lunt) to the understanding of human microbial communities.

To undertake this project you should have a solid programming background. Full bioinformatics training will be provided.

More about this research team

We are looking for talented candidates to join a multi-disciplinary cluster of four funded PhD scholarships. Working with a major industry partner you will develop and apply cutting edge microbiome profiling technologies to real world clinical and consumer applications.

We are covered, inside and out, by diverse communities of microorganisms, collectively termed our ‘microbiota’. These microorganisms are intimately associated with their micro-environment, producing a range of factors that regulate both our heath and susceptibility to disease.

As a student within this cluster you will focus on understanding the microbial complexity of the skin or respiratory tract, two tissues that are currently poorly studied. You will explore new ways to promote a “healthy” microbiome, test the microbe-supporting effects of new products, or develop new methods to characterise the resistance of wound bacteria at the population level.

Supervised by a team of internationally recognised academics you will have access to outstanding research facilities, including the Hull “VIPER” high performance computing, and NHS/clinical partners.

These projects will provide unique “big data” bioscience training, within a vibrant, supportive research environment, equipping you with skills that are essential for a future career in modern academia or industry.

Applicants for this project need to apply through the University of York website. Please select PhD in Medical Sciences with a start date of “2020 October, full time” and quote the specific project title you wish to apply for.

Entry requirements

Applicants should have a 1st class undergraduate degree in Biomedical Science, Microbiology or Computing, together with relevant research experience or a Masters level qualification in a relevant discipline. A 2:1 may be considered, if combined with relevant experience.

Successful applicants will be informed of the award as soon as possible and by 16 March 2020 at the latest.

Scholarships will start on 21 September 2020.

Funding Notes

This is a funded scholarship over a three year period for full-time study. The funding you receive will cover the fees for your PhD programme and also an annual maintenance grant at the level of UKRI (£15,009 in 2019/20).

There is an optional writing up period if you need to complete your thesis after the three year period of your research degree, for which there is a small charge. Your maintenance grant will not cover you during this optional writing up period.

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