Assembly and Search Bioinformatician
Biological Sciences,Biology,Computer Science,Computer Science,Information Systems
Short info about job
Company: European Molecular Biology Laboratory (EMBL)
Salary: Grade 5 (monthly salary starting at £2,552 after tax).
Hours: Full Time
Contract type: Fixed-Term/Contract
Type / Role: Academic or Research
Phone: +44-1344 9925018
Fax: +44-1470 4766662
Detail information about job Assembly and Search Bioinformatician. Terms and conditions vacancy
Contract Duration: 2 years or until 31.10.2019
For more information about pay and benefits click here
Job DescriptionWe are seeking a full- or part-time bioinformatician to join the Data Coordination and Archiving Team at the EMBL European Bioinformatics Institute (EMBL-EBI), located on the Wellcome Genome Campus near Cambridge in the UK. The team provides data coordination services for partners around the world for a portfolio of sequencing based studies. With underlying infrastructure for these services based around the European Nucleotide Archive – one of life science’s largest and longest standing data resources – this is an opportunity to rise to the challenges of ‘big data’ and make contributions that advance the reach and utility of sequence data.
The post holder will contribute to the following two projects:
Application of quality control methods to genome assembly data sets: Funded by the BBSRC, the BlobToolKit project provides state of the art contamination detection software. The post holder will apply this software at scale to legacy and incoming datasets through workflows operating in our cloud compute environment.
Sequence indexes for global surveillance and beyond: The value of searching databases describing known sequence and variation (such as the European Nucleotide Archive; ENA) has been clear for many years. In collaboration with Zamin Iqbal at EMBL-EBI, we are implementing a powerful raw read search method. The postholder will develop workflows to provide this search as a service across comprehensive ENA bacterial read data.
At EMBL-EBI, we help scientists realise the potential of ‘big data’ in biology by enabling them to exploit complex information to make discoveries that benefit mankind. Working for EMBL-EBI gives you an opportunity to apply your skills and energy for the greater good
Qualifications and ExperienceYou should hold a university degree in bioinformatics, data science, computer science, or related fields and are expected to have previous experience in bioinformatics, database technologies and biological data analysis. You will have a proven track record of working on large-scale data analysis projects and an understanding of the challenges posed by collaborative projects including flexibility, tight deadlines, and use of state-of-the-art approaches. You may be required to travel. You must be highly motivated and able to work independently. You must be open to working in a production team (willing to conform and contribute to standard working practices) and are expected to have good communication skills, written and verbal, both to facilitate effective communications with other team members and to communicate with external collaborators and users.
You must have strong knowledge in shell scripting (BASH, Python) in a Unix/Linux environment. Experience in Java programming would be very valuable. You will have a solid understanding of distributed programming and a strong knowledge of SQL (Oracle/PostgreSQL/MySQL). Experience with cloud computing and workflow environments will be advantageous.
Experience of administration and deployment of software in cloud-based environments, workflow systems, shared code-bases and practical use of machine learning, is highly desirable.
Application InstructionsTo apply please submit a covering letter and CV, with two referees, through our online system.
Additional InformationApplications are welcome from all nationalities.
EMBL-EBI is committed to achieving gender balance and strongly encourages applications from women.
It is envisaged that interviews will take place on 29.09.2017.