Bioinformatics Programmer
Post Details
Job Title
Bioinformatics Programmer
Post Number
1004683
Closing Date
2 Jul 2024
Grade
SC5
Starting Salary
£43,550 - £54,900
Hours per week
37
Months Duration
Indefinite

Job Description

Main Purpose of the Job

The post holder will contribute to the activities of Core Bioinformatics, with a particular focus on infrastructure maintenance and development. Familiarity with Linux, containers (e.g. Apptainer), and HPC is important, as well as understanding and building of bioinformatics workflows (Nextflow) and the ability to contribute to the development and execution of microbial genomics analyses.

Key Relationships

You will report to the Head of Bioinformatics and work closely with the Core Bioinformatics scientists. Our team liaises with Research Computing, the group that manages the infrastructure for all Norwich Biosciences Institutes. For specific tasks or projects, you’ll also work more closely with some group leaders and their team members (mainly postdocs)

Main Activities & Responsibilities

Contribute to the operations of the core services at QIB (Galaxy, IRIDA, Automated pipelines)
Contribute to maintaining services and servers operational and up-to-date
Provide bioinformatics support to analyse NGS datasets (e.g. bacterial isolates, metagenomes, RNA-Seq, also from murine and human samples)
Manage tickets from the support system of Core Bioinformatics
Contribute to maintaining an updated documentation Wikipedia
Deliver internal training and seminars
Contribute to research papers (bioinformatics or data analysis sections)
Occasionally, participate in national or international conferences or meetings



As agreed with line manager, any other duties commensurate with the nature of the role




Person Profile

Education & Qualifications

Requirement
Importance
Degree in computer engineering, bioinformatics or a similar subject
Essential
PhD in Bioinformatics or related subject
Desirable

Specialist Knowledge & Skills

Requirement
Importance
Understanding of Next Generation Sequencing (NGS) applications
Essential
Basic knowledge of RDBMS databases (MySQL/MariaDB/PostgreSQL)
Essential
Knowledge of microbial genomics
Essential
Data science and visualisation skills using R or Python
Essential
Expert user-level experience of Linux (storage, network)
Essential
Knowledge of microbiome bioinformatics
Essential

Relevant Experience

Requirement
Importance
Knowledge or affinity of microbiology
Essential
Experience in workflow development, better if Nextflow DSL2
Essential
Development of open source projects (available on github etc.)
Desirable

Management and Leadership

Requirement
Importance
Promotes and strives for continuous improvement
Essential

Interpersonal & Communication Skills

Requirement
Importance
Ability to write clear technical documentation
Essential
Ability to present in public
Essential
Good communication skills, both written and verbal
Essential
Good interpersonal skills, with the ability to work well as part of a team
Essential

Additional Requirements

Requirement
Importance
Attention to detail
Essential
Promotes equality and values diversity
Essential
Willingness to embrace the expected values and behaviours of all staff at the Institute, ensuring it is a great place to work
Essential
Able to present a positive image of self and the Institute, promoting both the international reputation and public engagement aims of the Institute
Essential
Willingness to work outside standard working hours when required
Essential

Who We Are

Quadram Institute Bioscience

The Quadram Institute is at the forefront of a new interface between food science, gut biology and health, developing solutions to worldwide challenges in food-related disease and human health.

We are engaged in fundamental and translational food and health research, alongside clinical studies, endoscopy and industry, working together to become a leading international hub for food and health research, combining scientific excellence and clinical expertise, delivering impacts on patient care and accelerating innovation.

The Quadram Institute is a diverse and multicultural scientific community. We thrive on our international and European links, appointing staff from across the world. Any candidate who would like further information on current or anticipated immigration requirements can contact the HR Team on +44 (0)1603 450888 or nbi.recruitment@nbi.ac.uk.

For more information about working at Quadram Institute Bioscience, please click here.

Department

Science Operations

Group Details

You will be embedded within the Core Bioinformatics team for the Quadram Institute Bioscience, which is composed of experienced bioinformaticians, providing a supportive environment to enhance your skills. Our team develops reproducible and scalable analytical pipelines with a focus on promoting efficiency. There are ample computing resources for these pipelines; Both the supporting team and supporting infrastructure will accelerate your research.
 
You can also also have the opportunity to work with researchers on publishing new methodologies and tools, which we make available as open-source software. This position is ideal for someone wanting to grow their bioinformatics experience, and we will provide on-the-job training to propel your bioinformatics career.

Our team manages the Institute's self-service infrastructure, including a Galaxy instance and an OpenNebula cloud, and provides regular training events for researchers and students. 

Our team adopted Nextflow DSL2 as a workflow language to implement our protocols, allowing seamless integration with our HPC and Cloud environments. Core Bioinformatics is a key part of the Institute’s research activities, and our team is regularly contributing to the analysis of datasets, their interpretation, and dissemination.

Living in Norfolk

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Bioinformatics Programmer

Quadram Institute Bioscience (QIB) is seeking an enthusiastic and motivated Bioinformatics Programmer to join the Core Bioinformatics team, based in Norwich, UK.

Background:

The post holder will contribute to the activities of Core Bioinformatics, with a particular focus on infrastructure maintenance and development. Familiarity with Linux, containers (e.g. Apptainer), and HPC is important, as well as understanding and building of bioinformatics workflows (Nextflow) and the ability to contribute to the development and execution of microbial genomics analyses.

The candidate will bring engineering skills to the team, helping to maintain our infrastructure (in particular, the Galaxy Project server) and supporting the institute's research activities, which mostly focus on microbial genomics and metagenomics. This aspect will require experience and familiarity with the Linux Command Line, including some aspects of server administration (managing web and database services, using containerisation, etc) and working knowledge of MySQL or similar relational databases. As a developer, we expect competency in Python coding, and the ability to work on legacy code. Some experience with other languages (such as R, Java, JavaScript, or C++) will be a plus.

The role:

As part of core bioinformatics, the job holder will also provide support to research projects, analysing NGS datasets (for example, RNA-Seq, bacterial genomes, metagenomes) mostly using robust Nextflow pipelines. The ability to troubleshoot pipeline executions and improve existing pipelines is essential. Knowledge of microbiology and microbial genomics is desirable, but the candidate must be willing to learn more about microbiology and microbiome and make efforts to keep up to date with the latest relevant literature.

This post offers the successful candidate an exciting opportunity to apply and develop their knowledge and skills in the context of cutting-edge microbial genomics and microbiome research. There is a diverse selection of training opportunities on campus, and we encourage participation in relevant scientific conferences.

The ideal candidate:

Candidates should have a degree in computer engineering, bioinformatics, or a similar subject. A PhD in Bioinformatics or a related subject will be advantageous.

You will have knowledge of microbial genomics and microbiome bioinformatics, as well as an in-depth understanding of Next-Generation Sequencing (NGS) applications. Candidates will also have expert user-level experience with Linux and be comfortable writing Python code.

Candidates should have previous experience in the development of open-source projects and workflow development. Previous experience with Nextflow DSL2 would be advantageous. You must have the ability to write clear technical documents and have good communication skills.

Additional information:

Salary on appointment will be within the range of £43,550 to £54,900 per annum depending on qualifications and experience. This is a full-time post on an indefinite basis.

We are committed to equal opportunities and welcome applications from all sectors of society.  The Institute supports equality of opportunity within the workplace and expects all employees to share and display these values.  To support our commitment, we have a range of family, faith and diversity friendly working arrangements to help all staff achieve excellence in their area of work.

As a Disability Confident employer, we guarantee to offer an interview to all disabled applicants who meet the essential criteria for this vacancy.

The closing date for applications will be 2 July 2024

The Quadram Institute Bioscience is a registered charity (No. 1058499) and is an Equal Opportunities Employer.