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Enhanced and robust characterisation of dynamic protein post-translational protein modifications


Faculty of Health and Life Science

Prof C E Eyers , Prof A Jones Friday, January 22, 2021 Competition Funded PhD Project (Students Worldwide)
Liverpool United Kingdom Biochemistry Bioinformatics Cell Biology Developmental Biology

About the Project

Post-translational modification (PTM) of proteins is an essential means of allowing rapid regulation of protein function in all organisms. This process, which is typically reversible and extremely dynamic, allows cells to respond rapidly to environmental factors, be that e.g. growth factors, stressors, or contact adhesion with other cells. Consequently, dys-regulation of PTM status is often a cause of disease, including e.g. cancer, diabetes and auto-immune disorders. To understand how different types and sites of protein PTM contribute both to fundamental and disease biology, it is essential to catalogue these PTMs in a high-throughput manner across the whole protein complement, and quantify how they are regulated under different conditions. However, the vast majority of PTM discovery studies focus on specific types of modifications, particularly phosphorylation of serine, threonine and tyrosine residues. Recent technology development in our group has revealed that many other amino acids are also phosphorylated on human proteins and suggests that there is extensive interplay between different types of PTM on the same residues.

This PhD studentship will join an exciting collaborative partnership between Prof. Claire Eyers, Prof. Andy Jones and Bruker Daltonics, one of the leading mass spectrometry instrument manufacturers, to develop advanced analytical and computational strategies to define and explore PTM diversity and interplay on human proteins. Using these methods, we will characterise the global PTM profiles in human model cell lines treated with clinically-relevant small molecule inhibitors, looking at co-regulation of different types and sites of modification.

The supervisory team comprises:

·        Claire Eyers (Director, Centre for Proteome Research, https://www.liverpool.ac.uk/cpr/; Twitter: @ClaireEEyers) – https://www.liverpool.ac.uk/integrative-biology/staff/claire-eyers/

·        Andy Jones (Director, Computational Biology Facility, https://www.liverpool.ac.uk/computational-biology-facility/; Twitter: @andy___jones) – https://www.liverpool.ac.uk/integrative-biology/staff/andrew-jones/

You will join an established collaboration between the groups of Eyers and Jones, and benefit from a formalised collaboration with Bruker. You will receive broad training in mass spectrometry-based proteomics, computational biology, and phosphorylation-mediated signalling. Specific training will be provided in fundamental mass spectrometry, the associated computational analysis tools for protein/proteomics data and pathway interrogation, and basic cell biology, making you highly employable across the field of biological sciences.

Whilst predominantly based in Liverpool, where you will join a dynamic and collaborative group of research scientists, you will also spend time at the Bruker development site in Bremen. It is expected that the outcomes of this research will likely lead to several high impact publications and conference presentations.

Informal enquiries may be made to:

HOW TO APPLY

Applications should be made by emailing with a CV and a covering letter, including whatever additional information you feel is pertinent to your application; you may wish to indicate, for example, why you are particularly interested in the selected project/s and at the selected University. Applications not meeting these criteria will be rejected. We will also require electronic copies of your degree certificates and transcripts.

In addition to the CV and covering letter, please email a completed copy of the Additional Details Form (Word document) to , noting the additional details that are required for your application which are listed in this form. A blank copy of this form can be found at: https://www.nld-dtp.org.uk/how-apply.


Funding Notes

CASE studentships are funded by the Biotechnology and Biological Sciences Research Council (BBSRC) for 4 years. Funding will cover tuition fees at the UK rate only, a Research Training and Support Grant (RTSG) and stipend. We aim to support the most outstanding applicants from outside the UK and are able to offer a limited number of bursaries that will enable full studentships to be awarded to international applicants. These full studentships will only be awarded to exceptional quality candidates, due to the competitive nature of this scheme.
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