Bioinformatician (DIME Study)
Post Details
Job Title
Bioinformatician (DIME Study)
Post Number
1004063
Closing Date
7 Jul 2021
Grade
SC6
Starting Salary
£32,255 - £39,345
Hours per week
37
Project Title
Food & Nutrition Security Cloud (FNS-Cloud)
Expected/Ideal Start Date
01 Sep 2021
Months Duration
24

Job Description

Main Purpose of the Job

Applications are invited for a Bioinformatician to join the Laboratory of Dr Traka in the Food Databanks Programme at Quadram Institute Bioscience (QIB), based in Norwich, UK.

We are looking for a highly motivated individual to drive bioinformatics analyses of a human dietary intervention study within the Food Databanks National Capability (FDNC), shaping the microbiome analysis within the Food and Nutrition Security (FNS) Cloud project.

The post holder will be expected primarily to establish and adapt existing metagenomics pipelines, and to work with FNS-cloud partners to integrate machine-learning based microbiome analysis tools. In addition, they will actively contribute to the development of analysis tools to integrate additional data types (whole genome sequencing, metabolomics of faecal and urine samples, metabolic models) into metagenomic workflows. They will also be expected to contribute to the development of use cases that will showcase the capabilities of the FNS Cloud in handling microbiome data for the Food & Nutrition community.

This work will underpin our activities in the development of the FNS-cloud, and will also provide opportunities for the post-holder to undertake (virtual/physical) exchanges with leading bioinformatics/data science centres across our European partners around food and health data (eg Hall lab in TUM/Germany, Korousic lab in JSI/ Slovenia).

Key Relationships

The post holder will work closely with Dr Traka (deputy Head of FDNC), Paul Finglas (Head of FDNC; Scientific Coordinator of FNS-Cloud), and Dr Falk Hildebrand (Bioinformatics Group, QIB). Within QIB, they will be additionally expected to interact with the QIB Core Informatics Team to share best practices and ensure our computing and cloud infrastructure needs are met. Externally, they will be interacting with our partners and collaborators to share best practice, adopt cutting edge computational tools, and be a champion of our activities.

Main Activities & Responsibilities

Percentage
Provide bioinformatics analysis for the human intervention study (adopt bioinformatics pipelines based on metagenomics assembled genomes (MAGs), undertake diversity analyses, functional analyses, etc)
60
Contribute to developments around integrating metagenomics and metabolomics data in order to investigate the functional significance of the effect of diet (in collaboration with other FNS-Cloud partners), and metabolic modelling in microbial communities
15
Help shape the Microbiome Demonstrator by delivering a series of use-cases around microbiome data tailored to the FNS-Cloud human study outputs and potentially integrating with other publicly available microbiome datasets
10
Keep up–to–date with the latest advances in microbiome bioinformatics and current literature to maintain high-quality analytics capability
5
Actively engage with the microbiome and the F&N community by participating in conferences and networking events but also maintaining good working relations with our existing network
5
Contribute to scientific publications
5
As agreed with line manager, any other duties commensurate with the nature of the role

Person Profile

Education & Qualifications

Requirement
Importance
PhD in Bioinformatics, Microbiology or related discipline
Essential

Specialist Knowledge & Skills

Requirement
Importance
Proficiency in Bash scripting and working with LINUX environments
Essential
Proficiency in at least one programming language (e.g. Python, Perl, R)
Essential
Knowledge and experience with advanced statistics or numerical ecology (e.g. Regression Models and Time Series)
Essential
Understanding genomes and interpreting gene function
Desirable
Familiarity with genomic data, associative statistics and pipeline development
Desirable
Understanding the role of diet in shaping gut microbiome
Desirable

Relevant Experience

Requirement
Importance
Experience with analysis of microbial sequencing data
Essential
Experience with multi-omics integration in microbial ecosystems
Desirable
Familiarity with source control
Desirable
Experience with high performance computing
Desirable

Interpersonal & Communication Skills

Requirement
Importance
Demonstrated ability to work independently, using initiative and applying problem solving skills
Essential
Excellent time management and organisational skills with the ability to work independently to tight deadlines
Essential
Excellent communication skills, both written and oral, including the ability to present complex information with clarity
Essential
Promotes and strives for continuous improvement
Essential
Good interpersonal skills, with the ability to work 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

Food Databanks

Group Details

Food Databanks National Capability (FDNC) is the national provider of nutritional food composition data commonly eaten in the UK, which underpin research into the links between diet and health. More recently, we have an active interest in the role of diet in shaping human gut microbiome and are involved in EU-wide initiatives to support this.

We are founding members of the ELIXIR Food & Nutrition Community that aims to facilitate meaningful harmonization, integration and analysis of datasets relevant for food, health & microbiome research, underpinned by FAIR principles (FAIR; Findable, Accessible, Interoperable & Reusable).

We are also lead partners in a consortium to develop an EU-wide Food and Nutrition Security (FNS) data cloud (FNS-Cloud) that will connect and FAIRify various types of data relevant for the food and health research community (2019-2023). Within the project we are leading a human dietary intervention study, designed to investigate the effects of a plant bioactive-rich diet on the diversity of gut microbiome and on markers of metabolic health. Data from this study will form part of the Microbiome Demonstrator of the FNS-Cloud, where different microbiome tools and analyses will be showcased for future users of the FNS-Cloud.

Living in Norfolk

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Bioinformatician (DIME Study)

Applications are invited for a Bioinformatician to join the Laboratory of Dr Traka in the Food Databanks Programme at Quadram Institute Bioscience (QIB), based in Norwich, UK.

Background:

Food Databanks National Capability (FDNC) is the national provider of nutritional food composition data eaten in the UK, which underpin research into diet and health, and the role of diet in shaping human gut microbiome.

We are lead partners in a consortium to develop an EU-wide Food and Nutrition Security (FNS) data cloud (FNS-Cloud) that will connect and FAIRify various types of data for the food, health and microbiome research community (2019-2023). As part of the FNS-Cloud we are undertaking a human dietary intervention study (DIME study), designed to investigate the effects of plant bioactive-rich diets on gut microbiome diversity and on metabolic health markers.

Dr Traka is also a founding member of the ELIXIR Food & Nutrition Community that aims to facilitate meaningful harmonization, integration and analysis of datasets relevant for food, health & microbiome research, underpinned by FAIR principles (Findable, Accessible, Interoperable & Reusable).

The role:

We are seeking a highly motivated individual to drive bioinformatics analyses by:

• Leading the metagenomic analyses from the DIME study through applying and adapting existing software from the Hildebrand lab
• Developing a framework to integrate additional data types (whole genome sequencing, metabolomics of faecal and urine samples, metabolic models) into metagenomic workflows that can be used consortium wide
• Developing a series of activities (eg putting together bioinformatic pipelines, generate how-to videos, etc) using the human microbiome study and other publicly available microbiome datasets to demonstrate the capabilities of the FNS-Cloud.

The post holder will work closely with Dr Traka (FDNC) and the Hildebrand Bioinformatics group at QIB.

This work will underpin our activities on FNS-cloud development, and will provide opportunities for the post-holder to undertake (virtual/physical) exchanges with leading bioinformatics/data science centres across our European partners around food, health and microbiome data (eg Hall lab in TUM/Germany, Korousic lab in JSI/ Slovenia).

The ideal candidate:

The ideal candidate will:

• Be proficient in Bash scripting and working with LINUX environments
• Be proficient in at least one programming language (e.g. Python, Perl, R)
• Have knowledge and experience with advanced statistics or numerical ecology (e.g. Regression Models and Time Series)
• Have experience with analysis of microbial sequencing data 

Additional information:

Salary on appointment will be within the range £32,255 to £39,345 per annum depending on qualifications and experience.  This post is for a contract of 24 months.

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 7th July 2021.

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