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Short course

Analysing microbial genomic data

Five days
Postgraduate Short-Course (CPD)

The generation and analysis of genome sequencing data is rapidly becoming a commonplace requirement in microbiology research laboratories and clinical and public health microbiology laboratories. However, many microbiologists shy away from incorporating genomics into their research or lab practices, feeling that extensive skills in bioinformatics are required to analyse such data.

This 5-day course is designed to provide microbiologists with the ability to perform high-level analysis of microbial genomic data sets, regardless of background knowledge or ability. A mixture of seminars from world leading researchers, discussion fora and guided hands-on training will provide participants with the skills and knowledge required to plan, design, and analyse data from microbial genomics based investigations, be they fundamental research or public health epidemiological investigations.

Course Overview

  • Genome data formats, retrieving sequence data from repositories, and QC
  • De novo genome assemblies and annotation
  • Mapping and SNP calling
  • Pangenome analysis
  • Phylogenetics
  • Interpreting your data

Learning outcomes

  • Competently use ubuntu operating systems and usage of command line
  • Perform assembly, annotation, mapping, comparative genomics and phylogenetics on large genome data sets
  • Automate tasks on large data sets using bash commands
  • Making biological interpretations from genomic data

Who is the course for?

The course is designed for anyone with an interest in analysing microbial genomic data. No prior knowledge of bioinformatics is required, though participants will be asked to work through an online tutorial on using the command line prior to the course. All participants will be proficient in data analysis by the end of the course. We encourage PhD students, post-doctoral researchers, research fellows and early-career PIs, and clinical and public health microbiologists to attend.

PC's will be supplied for the July course, but delegates are welcome to bring their own laptops if they wish. Additional software will have to be installed.

Where will this course be held?

Murray Learning Centre (R28 on campus map), University of Birmingham, Edgbaston, B15 2TT.

The University is easily accessible by train, the University Station is only two stops from Birmingham New Street.

 There are two hotels on campus, both within a 10 minute walk of the Medical School.

Edgbaston park Hotel (G23 on campus map)

Lucas House Hotel (G16 on campus map)

How to apply

Register your interest for updates on future dates. The courses have minimum required attendance levels and the University reserves the right to cancel or postpone the course if the minimum required number of delegates has not been achieved for the course.

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