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Bioinformatician in Protein Structure and Genetic Variant Modelling

Imperial College London

Location: London
Salary: £53,927 to £55,345 per annum
Hours: Full Time
Contract Type: Fixed-Term/Contract
Placed On: 15th February 2024
Closes: 14th March 2024
Job Ref: NAT01650
 

Location: South Kensington Campus

Job Summary

We are looking to recruit an experienced Bioinformatician with professional experience in software development to work on a Wellcome Trust funded project (i) to develop novel genetic variant and protein modelling algorithms using machine learning and then (ii) to disseminate their use to the community via web-site development.

You will undertake research work to further develop and disseminate the following popular biomedical resources: (i) The Missense3D portal (http://www.sbg.bio.ic.ac.uk/~missense3d/) that predicts the damaging effect of genetic variants by providing a 3D structure-based analysis. Missense3D is a popular resource for the genetic community with over 8000 users in 2023 and >300 citations since its launch in 2019. (ii) The Phyre portal (http://www.sbg.bio.ic.ac.uk/~phyre2/) that provides template-based prediction of protein structure from sequence. Work on Phyre will continue to develop complementary resources to the deep learning methods such as AlphaFold. Phyre is widely used by the community with over 40,000 unique users in 2023 and more than 9,000 citations to the 2015 paper.

The project will involve developing novel algorithms, typically using a machine learning strategy, together with the dynamic web interfaces. The project will be supervised by Professor Michael Sternberg and Dr Alessia David at Imperial in collaboration with Professor Richard Houlston FRS at the Institute of Cancer Research (Sutton, London).

You will be a member of the team working in the Centre for Integrative and System Biology and Bioinformatics.

Duties and responsibilities

You will develop and support the protein and genetic variant modelling resources Missense3D and/or Phyre working on the algorithmic back end and the dynamic web site front end. In addition, you will help in disseminating and supporting the use of these resources. The post requires professional level experience in coding in a high-level language and, as the major language for software development is Python, we require experience in coding in this languageWe also require a broad knowledge of bioinformatics, including about protein structure.

Essential and desirable requirements

  • You must have an undergraduate degree in a biological, physical, numerical or computational discipline
  • You must have a broad knowledge of Bioinformatics, including about protein structure, obtained via software development and/or a postgraduate degree in Bioinformatics or a very closely related discipline.
  • You must have extensive experience of coding to a professional level in a high-level language such as Python or C and in particular experience of coding in Python.
  • You must have experience of the Linux operating system.
  • In addition, it is desirable that you have (i) previously developed a bioinformatics resource, (ii) have had experience of working on computational studies on protein 3D structure, (iii) have developed algorithms using machine learning and (iv) experience of coding in the development of a dynamic web site using technologies such as HTML, Django, Flask, CSS. 

Further Information

This is a full time, fixed term position until 30 April 2026 with possibility of extension. You will be based at South Kensington Campus.

Please note, the successful candidate will be appointed at the bottom of the salary scale.

As this is a readvertisement, we will not be considering previous applicants except if their skill set has changed substantially.

For informal enquiries please contact Professor Michael Sternberg via m.sternberg@imperial.ac.uk

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