Postdoctoral Fellow in Quantitative Models for Predicting Antib

Location
England, Cambridgeshire, Cambridge
Salary
$38551.48 - $48325.96 per annum + excellent benefits
Posted
March 09 2017
Ref
82675
Contact
The Wellcome Trust Sanger Institute
Position Type
Contract
Job Type
Postdoc

Salary £31,115 to £39,004 plus excellent benefits. Three years fixed term.

The Wellcome Trust Sanger Institute is seeking a highly motivated researcher with strong skills in computational genomics to fill a postdoctoral fellow position. The aim of the fellow is to develop a quantitative framework for predicting antimicrobial resistance spread in clinical bacterial isolates from diverse generated large-scale genetic and phenotypic data.

The goal of the encompassing international collaborative project is to predict and map drug targets for cell-to-cell horizontal transmission of antibiotics resistance. To this end, we are generating data from three different types of bacterial strains. First, we are performing large-scale experimental evolution experiments to map de novo mutations that confer changes to transmission ability. Second, we are phenotyping comprehensive collections of knockout and overexpression mutants to identify determinants of adaptation. Finally, we will sequence full genomes of, gather gene expression and proteomics data for, and deeply phenotype thousands of clinical isolates from the largest collection in Europe

The successful candidate will perform original research in quantitative modeling of these multimodal high throughput data to predict antimicrobial transmission for previously unobserved clinical isolates. It is important you have the ability to bridge from understanding the processes generating the measured data, to implementing computational pipelines to extract information, as well as creating and applying correct models for analysis. You are expected to make progress on your project as the first priority, while budgeting time for training in further skills, piloting new leads, and potentially collaborating on other related projects.

This position offers the opportunity to work at one of the world's leading genomic centres at the forefront of genomic research, in collaboration between computational groups with expertise in quantitative genomics (Parts, Sanger Institute) and evolutionary biology (Mustonen, University of Helsinki). You will have access to Sanger's computational resources, including a 15000+ core computational cluster, the largest in life science research in Europe, and multiple petabytes of high-speed cluster file systems.

 

 


Essential Skills

 

 

 

 

 

  • Motivation to understand antibiotic resistance spread
  • PhD in a relevant subject area (Physics, Mathematics, Computer Science, Engineering, Statistics, Computational Biology, Bioinformatics, Molecular Biology)
  • Experience with bacterial genomics
  • Ability to devise novel quantitative models, use relevant mathematics-heavy literature
  • Experience in formulating the world in statistical models and applying them to real data
  • Full working proficiency in a scripting language (e.g. Python, R, Perl), and UNIX/Linux
  • Strong publishing record


Ideal Skills

 

 

 

 

 

 

  • Knowledge of genomics and molecular biology
  • Previous experience in creating finished software
  • Full working proficiency in a compiled language (e.g. C, C++, D, Julia, Fortran)
  • Previous experience with implementing-omics data analysis pipelines on a cluster.


Other information

 

 

 

 

 

 

The Sanger Institute is a charitably funded research centre that applies the power of genomics to uncover the basis of genetic and infectious disease. We conduct science at a scale and speed that sets our research apart. Our passion is to provide results that can be translated into diagnostics, treatments or therapies that reduce global health burdens.

 

 

The Institute is located near Cambridge on the stunning Wellcome Trust Genome Campus. This growing and dynamic site is the British hub of genomic science.

Our Benefits include: Defined Benefit Pension Scheme, Group Income Protection, Healthcare scheme, Childcare Vouchers, Nursery and 25 days Annual Leave plus Bank Holidays. We also have a gym, two cafes, a nursery, dining facilities, and a free campus Bus service. Our thriving Sports and Social Club provides many opportunities to meet with people working across the campus.

Closing date: 15/04/2017 (please submit a cover letter and CV with your application).