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Earlham Institute is a vibrant, contemporary research institute and registered charity, working in an area of rapid technological development and innovation.
Earlham Institute is strategically funded by the BBSRC to lead the development of a skill base in bioinformatics and a genomics technology platform for UK bioscience. The Institute is located on the Norwich Research Park, together with its partners: the John Innes Centre, the Institute of Food Research, The Sainsbury Laboratory, the University of East Anglia and the Norfolk and Norwich University Hospital. The research park has an excellent reputation for research in plant and microbial sciences, interdisciplinary environmental science and food, diet and health, to which Earlham Institute contributes strengths in genomics and bioinformatics. Close links exist between the NRP partners and new opportunities for collaboration in exciting new initiatives are under development. The NRP recently received £26M of government investment to facilitate innovation and further develop infrastructure to attract science and technology companies to the Park to enhance the vibrant environment and realise economic impact from research investment.
Earlham Institute is a UK hub for innovative Bioinformatics through research, analysis and interpretation of multiple, complex data sets. It hosts one of the largest computing hardware facilities dedicated to life science research in Europe. This has been boosted recently by an e-Infrastructure grant to expand the data storage capacity to a multi-petabyte unit, deploying a high performance cluster and large-memory server enabling the allocation of processes requiring several terabytes of computing memory.
Earlham Institute’s state of the art DNA sequencing facility operates multiple complementary technologies for data generation that provide the foundation for analyses furthering our fundamental understanding of genomes and how they function. We aim to be at the forefront of technological advances and are developing and implementing technologies to generate and analyse new types of data. We also develop novel platforms to provide access to computational tools and processing capacity for multiple academic and industrial users and promoting applications of computational bioscience. Earlham Institute has one fully owned subsidiary, Genome Enterprise Ltd (GEL) via which it offers genomic and bioinformatics services on a trading basis and works with commercial providers on a partnership basis. Earlham Institute also receives specific funding to enable knowledge exchange programmes which are supported across the institute teams.
- Job Title
- Bioinformatician (Single Cell Analysis)
- Post Number
- Closing Date
- 16 Sep 2018
- Starting Salary
- £31,250 - £38,100
- Hours per week
- Project Title
- Single Cell Analysis
- Expected/Ideal Start Date
- 01 Oct 2018
- Months Duration
Main Purpose of the Job
Establishing pipelines to analyse single cell genomic, epigenomic and transcriptomic sequencing data. Working alongside faculty groups, the genomic pipelines team and external collaborators to deliver single cell analysis on a diverse array of biological systems, including plant, microbial and animal studies. Contributing to the preparation of manuscripts for submission. Supporting technical development in single cell genomics and working with datasets arising from novel experimental techniques including multi-omics analysis.
The Core Bioinformatics Group led by David Swarbreck provides high quality computational analyses of a range of sequence data types and develops software and analysis pipelines that support the Institute's Core Strategic Programmes and National Capability in Genomics and Single Cell Analysis (NCGS). The National Capability provides access to state of the art genomics technologies for research groups throughout the UK as well as delivering sequencing and genomics services to the associated Science Faculty groups and commercial customers. The group are involved in the analysis of sequence data from a wide variety of sequencing platforms and work alongside Earlham research groups to establish new software tools and analysis methods.
Applications are invited for an enthusiastic and dedicated Bioinformatician to join the Core Bioinformatics Group at the Earlham Institute (EI).
Earlham Institute is a research institute focused on exploring living systems by applying computational science and biotechnology to answer ambitious biological questions and generate enabling resources.
EI employs cutting edge technologies and computational approaches to deliver high-quality data analysis and develop software and analysis pipelines that support the Institute’s Core Research Programmes and UK Research community via the National Capability in Genomics and Single Cell Analysis (NCGS).
This position provides an opportunity to gain expertise in new sequencing technologies and their application in an exciting and emerging field. The successful candidate will work closely with our technical development team to develop and apply new technology to a variety of single cell applications.
The post-holder will analyse data from cutting edge technologies, establish and implement pipelines and methods for the analysis of single cell genome, epigenome and transcriptome data across a wide variety of biological systems. The post holder will deliver single cell data analysis in conjunction with faculty groups, the genomic pipelines team and external collaborators.
This is a collaborative project with the successful candidate joining the group of Dr. David Swarbreck and working closely with wet and dry lab scientists in the groups of Dr. Iain Macaulay and Dr. Wilfried Haerty.
The ideal candidate:
The successful candidate will possess a PhD or equivalent experience in computational biology, bioinformatics or similar, with a strong background in large scale data analysis, and will have demonstrated experience of transcriptomics, genomics or epigenomics data analysis. They will also possess a high level of skill and demonstrable experience of Python (preferable), Java, or C++, along with R and Bash scripting.
The ideal candidate will also be highly collaborative and have demonstrable experience of successfully managing their time to deliver analyses and input into multiple projects.
Salary on appointment will be within the range £31,250 to £38,100 per annum depending on qualifications and experience. This is a fulltime post for a contract for a period of 2 years
For further information and details of how to apply, please visit our web site http://jobs.earlham.ac.uk/ or contact the Human Resources team on 01603 450462 or firstname.lastname@example.org quoting reference 1003438.
As a Disability Confident employer, we guarantee to offer an interview to all disabled applicants who meet the essential criteria for this vacancy.
Reporting to the Core Bioinformatics group leader and interacting on a daily basis with members of the Swarbreck group, the Technical Development group leader and lab members (Macaulay group), faculty computational biologists, including the Haerty group, the Genomics Pipelines team, as well as other institute and external collaborators.
Main Activities & Responsibilities
- Analysis and interpretation of next generation sequencing data derived from single cells. This will include developing and assessing methods for quality control, mapping and subsequent analysis of single cell genome, epigenome and transcriptome sequencing data.
- Development of novel tools to analyse and integrate data from single cell genome sequencing, single cell transcriptomics (short and long read sequencing) and various single cell epigenetic approaches.
- Building analysis pipelines using open source and in-house developed tools as well as running commercially available analytical pipelines (e.g 10X genomics)
- Working with EI researchers and collaborators to deliver timely analysis of single cell datasets and being involved at all stages, from inception to completion and publication.
- As agreed with line manager, any other duties commensurate with the nature of the post
Education & Qualifications
- PhD in bioinformatics, computational biology or related subject with experience of working on genomics and transcriptomics data and bioinformatics
Specialist Knowledge & Skills
- Demonstrated skills in at least one of the following programming languages: Python (preferable), Java, C++, R
- Transcriptomics, genomics or epigenomics analysis skills
- Pertinent experience in Linux and in shell scripting
- Excellent problem solving skills with the ability to solve problems with numerous and complex variables
- Solid understanding of statistics for biology
- Excellent record-keeping and time management skills to work on several different projects at the same time
- Experience with Pipeline workflow programming (e.g. snakemake)
- Genomics or genetics projects
- Next generation sequencing (RNA-Seq, DNA-Seq) and large-scale data analysis
- Working on externally funded projects
- Single cell analysis
Interpersonal & Communication Skills
- Excellent oral and written communication skills
- Excellent interpersonal skills with the ability to work well in a team
- Good organisational skills
- Able to communicate with an interdisciplinary group including data analysts, computer scientists and biologists
- Networking and influencing skills and the ability to build effective collaborative links
- Evidence of presenting research findings to internal and external audiences
- Attention to detail
- Promotes equality and values diversity
- Must be able to travel and work a non-conventional work pattern on occasion
- Willingness to interact with laboratory scientists to develop a thorough understanding of the computational challenges of single cell analysis, arising at all stages from sample collection and processing through to data QC and analysis
- Willingness to participate in occasional training of other institute members and visitors, and as part of formal training programmes hosted at the institute