Research Scientist
Post Details
Job Title
Research Scientist
Post Number
1004671
Closing Date
20 Jun 2024
Grade
SC6
Starting Salary
£35,300 - £43,750
Hours per week
37
Project Title
Investigating transcriptional complexity using the circadian clock as a model system
Months Duration
36

Job Description

Main Purpose of the Job

This exciting position aims to develop novel bioinformatics pipelines that apply spatial/single cell transcriptomics approaches to investigate the genetic architecture of the clock at a single-cell resolution. These approaches are at the forefront of cell genomics working in both Arabidopsis and wheat. The role also will have the opportunity to contribute to large ongoing projects on gene regulation in wheat.

Specifically:
• They will work collaboratively across the institute, together with researchers within the Iain Macaulay group.
• They will be involved in analysing existing datasets and working with the Plant Cell Atlas.
• They will analyse complex transcriptional datasets and collaborate with the Locke group to develop mathematical models describing the circadian clock.
• They will also have the opportunity to work with the cross-institute programme Delivering Sustainable Wheat on decoding regulatory sequences and understanding transcriptional networks.
• Training in ML/AI approaches

Our ultimate aim is to use the clock as a model to investigate how complex regulatory networks work across multiple cell types and how cell state affects the clock.

Key Relationships

Day-to-day management Anthony Hall, collaboration with James Locke and Iain Macauley.  Project reporting Wilfried Haerty and Maria Derkacheva.

Main Activities & Responsibilities

Percentage
Work with experimentalists within the Iain Macaulay group to analyse and troubleshoot new spatial transcriptomic data sets. 
30
Collect and analyse existing datasets and working with the Plant Cell Atlas with a focus on clock function. Collaborate with the Locke group to develop mathematical models describing the circadian clock with single cell resolution.
30
Analyse DAP-seq data from wheat and araidopsis 
10
Collabrate with the Hall group to decoding regulatory sequences and understanding transcriptional networks.
10
Training in ML/AI approaches
10
Write and edit reports and papers
10
As agreed with line manager, any other duties commensurate with the nature of the role

Person Profile

Education & Qualifications

Requirement
Importance
PHD in computational or Plant Biology or closely related subject.
Essential

Specialist Knowledge & Skills

Requirement
Importance
Knowledge of plant genomics
Essential
Knowledge of plant biology
Essential
Skilled in computational methods for transcriptomic analysis
Essential
Knowledge of single cell and spatial transcriptomics
Desirable

Relevant Experience

Requirement
Importance
Experienced designing and implementing bioinformatic workflows
Essential
Experience in coding in python or R
Essential
Experienced using an HPC
Desirable
circadian biology
Desirable
Working with very large data sets (eg 100s of RNA-seq data sets)
Desirable

Interpersonal & Communication Skills

Requirement
Importance
Good interpersonal skill and ability to work as part of a team
Essential
Ability to work independently, using initiative and applying problem solving skills
Essential
Excellent communication skills both Written and oral
Essential
Excellent time management and organisation skills
Essential

Additional Requirements

Requirement
Importance
Attention to detail
Essential
Willingness to work outside standard working hours when required
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
Promotes equality and values diversity
Essential
Willingness to embrace the expected values and behaviours of all staff at the institute
Essential

Who We Are

Earlham Institute

About the Earlham Institute
The Earlham Institute is a hub of life science research, training, and innovation focused on understanding the natural world through the lens of genomics.

We are building a future where the biology of any organism can be understood by analysing its genome. Our mission is to decode the scale and complexity of living systems so we can understand, benefit from, and protect life on Earth.

The Earlham Institute is based on the Norwich Research Park and is one of eight institutes that receive strategic funding from the UKRI Biotechnology and Biological Science Research Council (BBSRC).

Our Science
Earlham Institute scientists specialise in developing and testing the latest tools and approaches needed to decode living systems and make predictions about biology.

We are home to state-of-the-art facilities and technology, creating a unique combination of expertise and infrastructure. We have dedicated laboratories for genome sequencing, single-cell analysis, engineering biology, and large-scale automation; as well as one of the largest supercomputing facilities for life science research in Europe. Our Advanced Training team also provides access to specialised scientific training to upskill the next generation of research and technical staff.

Our Culture
The Earlham Institute champions 'team science'. Our collegiate and innovative research environment comes with significant support, including a commitment to your professional development, research and administrative assistance, and opportunities to build collaborations with scientists and industry on the Norwich Research Park, across the UK, and internationally.

The Institute is also home to talented technical and operational staff, whose invaluable contributions enable our science to have the maximum impact. We aim to recognise, reward, and develop all staff and students so that every individual feels able to achieve their best with us.

We work hard to nurture an engaged and positive workplace, centred on core values that include openness, technical excellence, and collaboration. We attract staff from around the world who contribute to - and benefit from - an environment that enables them to deliver world-class science alongside a supportive and social community.

For more information about working at the Earlham Institute, please click here.

Further Information:

  • Our Vision and Mission
  • Our Strategy
  • Our Culture
  • Life at Earlham Institute
  • Department

    Research Faculty Office

    Group Details

    Earlham Institute is a vibrant research institute with a strong skill base in genomics technologies and bioinformatics. We aim to deliver programmes that improve food security, advance industrial biotechnology, and improve human health and well-being.

    Anthony Hall’s Plant Genomics group at Earlham is a well-established group with an international research reputation. The group emphasises team science within an inclusive and supportive environment. As part of the Cellular Genomics institute-wide programme, the candidate will join a multi-disciplinary team to analyse single-cell and spatial transcriptomic datasets. They will use these approaches to explore circadian clock function with single-cell resolution.

    The position is a collaboration with The Locke group at The Sainsbury Laboratory, Cambridge University, which is investigating gene expression dynamics in microbial and plant systems.

     

    Living in Norfolk

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    Research Scientist
    Applications are invited for a Research Scientist to join the Laboratory of Prof Anthony Hall in the Research Faculty of the Earlham Institute, based in Norwich, UK.

    Background:

    Earlham Institute is a vibrant research institute with a strong skill base in genomics technologies and bioinformatics. We deliver programmes to improve food security, advance industrial biotechnology, and improve human health and well-being.
     
    Anthony Hall’s Plant Genomics group at Earlham is a well-established group with an international research reputation. The group encourages a team science approach within an inclusive and supportive research environment. As part of the Cellular Genomics institute-wide programme, the candidate will join a multi-disciplinary team to analyse single-cell and spatial transcriptomic datasets. They will use these approaches to explore circadian clock function with single-cell resolution.
     
    The position is a collaboration with The Locke group at The Sainsbury Laboratory, Cambridge University, which is investigating gene expression dynamics in microbial and plant systems.

    The role:

    This exciting position aims to develop novel bioinformatics pipelines that apply spatial transcriptomics approaches to investigate the genetic architecture of the clock at a single-cell resolution. These methods are at the forefront of cell genomics and will be deployed  in both Arabidopsis and wheat.
     
    As part of this position the post holder will:
    •Work collaboratively across the institute, together with researchers from the Iain Macaulay group. 
    •Be involved in analysing existing datasets and working with the Plant Cell Atlas initiative.
    •Analyse complex transcriptional datasets and collaborate with the Locke group at TSL, Cambridge to develop mathematical models describing the circadian clock.
    •Have the opportunity to work within the cross-institute programme Delivering Sustainable Wheat on decoding regulatory sequences and understanding transcriptional networks.
    •Have training in ML/AI approaches
     
    Our ultimate aim is to use the clock as a model to investigate how complex regulatory networks work across multiple cell types and how cell state affects the clock. In addition to these roles, the post holder will have the opportunity to undertake co-supervision of PhD students within the group and develop management skills.

    The ideal candidate:

    We are looking for candidates with a PhD in computational or Plant Biology or closely related subject. They should have experience of applying computational biology and bioinformatics during their PhD studies, particularly to transcriptomic data analysis. It is important that this is evidenced in their application.
     
    The ideal candidate will also be able to demonstrate experience of analysing single-cell RNA-seq data and should be a team player who enjoys working in a collaborative scientific environment. They should also have a broad knowledge of plant genomics, basic statistics, coding (expertise in R and/or python) and experience running bioinformatic workflows, potentially in an HPC environment. Experience of collaborating with other research groups and across disciplines would be advantageous. Whilst not essential, there will also be the opportunity for researchers to become involved with the experimental aspect of the project

    Additional information:

    Salary on appointment will be within the range £35,300 to £43,750 per annum depending on qualifications and experience.  This is a full-time post for a contract of 36 months.

    For any enquiries, please contact Prof Anthony Hall on anthony.hall@earlham.ac.uk.

    This role meets the criteria for a visa application, and we encourage all qualified candidates to apply.  Please contact the Human Resources Team if you have any questions regarding your application or visa options.

    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 20 June 2024.