Scientific Programmer/Bioinformatician

Job Description:
We are looking for a bioinformatician to work on the wwPDB validation pipeline for structure data. The wwPDB validation pipeline is a critical component of OneDep data deposition and biocuration system. The candidate will be involved in implementing better validation metric for bound ligands as well as in maintenance of the validation pipeline. The candidate will also be involve din maintaining and developing the SIFTS (pdbe.org/sifts) infrastructure. This is a critical component of bioinformatics infrastructure that provides glue between PDB structure data and sequence information from UniProt and other databases. All major bioinformatics resources use these data to reliably link PDB structure information with other major biomedical resources.

The tasks for this post will be:

• implement improvements to the wwPDB validation pipeline;
• to maintain the wwPDB validation pipeline;
• to help maintain the OndeDep deposition and biocuration process
• to develop and maintain SIFTS infrastructure;
• to extend the existing PDBe REST API by developing new calls to export additional SIFTS data (Current API: http://www.ebi.ac.uk/pdbe/api/doc/);
• to interact with other EMBL-EBI and external teams

The successful candidate will report to the project manager for the Data and Integration team at PDBe, Aleksandras Gutmanas. This is an opportunity for the right person to contribute to the wwPDB mission of archiving high quality structure data as well as develop an excellent understanding of complex biological data and developing data integration infrastructure.

As part of the European Molecular Biology Laboratory (EMBL), we are a non-profit, intergovernmental organisation funded by 23 member states and two associate member states and proud to be an equal-opportunity employer. We are located on the Wellcome Genome Campus near Cambridge in the UK, and our 600 staff are engineers, technicians, scientists and other professionals from all over the world.

Qualifications and Experience:

We are looking for a bioinformatician with strong software engineering skills. The post holder should be able to work both independently and in close collaboration with the wwPDB OneDep and PDBe team members. The candidate will also interact with other teams at EMBL-EBI and other external collaborators. Excellent communication and interpersonal skills as well as excellent knowledge of English are therefore required.

You will have A PhD in structural biology or bioinformatics field and work experience in Structural biology, Bioinformatics or related subjects. Strong knowledge of structural biology is expected.

Excellent knowledge of Python (scripting, data integration, REST API development) is required, as well as a basic understanding of SQL (querying).

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Requeriments :

• Doctorate Degree

Skills :

• Bioinformatics
• Biology
• Programing in Python
• SQL

Areas :

• Bioinformatics

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Additional Info:
Location: Hinxton

Salary: £30,624 to £34,260 (Grade 5 or 6)

Hours: Full Time

Contract Type: Fixed-Term/Contract

Placed on: 21st March 2018

Closes: 22nd April 2018

Contract Duration: 3 years initially (renewable)

Grading: 5 or 6 (monthly salary starting at £2,552 or £2,855 after tax).

The Protein Data Bank in Europe Team (pdbe.org) is part of the worldwide Protein Data Bank organisation (wwPDB; wwpdb.org), which maintains the global archive of structural data on biomacromolecules - the PDB. The PDBe Team also maintains a number of databases that support deposition and advanced search services for structural biologists and the wider scientific community. The Team consists of an international and inter-disciplinary mix of professionals: scientists, software engineers, and database engineers. The PDBe and CS3DB teams form the Molecular and Cellular Structure cluster within the EBI.

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