Job Description:
Job Description The European Molecular Biology Laboratory, in collaboration with the Euro-BioImaging infrastructure and other partners, is developing a strategy for biological reference image data archiving at the European Bioinformatics Institute (EMBL-EBI), in order to increase the current image archiving capacity and range. In this context, we are looking for a software engineer with experience in complex, scalable systems and familiarity with image data to develop the biomedical reference image archive at EMBL-EBI. Initially the reference image archive will be a part of the EMBL-EBI's BioStudies database - a new resource at EMBL-EBI for archiving multimodal data. The post-holder will develop systems for management of large volumes of image data generated by cutting-edge imaging technologies, including correlative light electron and super-resolution light microscopy and other imaging modalities. Tasks will include the development of the back-end aspects of the data management infrastructure, the associated user-facing software components, and integration with the existing data management systems. The successful applicant will deliver and maintain robust software components and will work in a team with other software engineers, data curators and bioinformaticians. We will also be working closely with the molecular structure database team that runs and develops the Electron Microscopy Data Bank (EMDB) and the Electron Microscopy Pilot Image Archive (EMPIAR). The post holder will report to the Functional Genomics Development team leader. 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. As part of the European Molecular Biology Laboratory (EMBL), we are a non-profit, intergovernmental organisation funded by 22 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 people with a strong interest in software engineering and design - a degree in computer science, mathematics, IT, or a related field is necessary. Experience with imaging data, such as light and/or electron microscopy data, is essential. The post holder will also have a track record of designing and building web-based software infrastructures. Hands-on experience with image data formats, and protocols and systems for large data manipulation (e.g., Aspera, UDT, GridFTP, object stores) is desirable. Bioinformatics, biology, or life science experience would be a strong advantage. The post holder should be able to work independently on assigned tasks, as well as in a small team; take initiative as necessary; think independently and creatively; and deliver results on time. An enthusiasm for solving challenging problems is a must. Ability to efficiently communicate with other group members (software developers and biologists) is important.
Additional Info:
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Job Description The European Molecular Biology Laboratory, in collaboration with the Euro-BioImaging infrastructure and other partners, is developing a strategy for biological reference image data archiving at the European Bioinformatics Institute (EMBL-EBI), in order to increase the current image archiving capacity and range. In this context, we are looking for a software engineer with experience in complex, scalable systems and familiarity with image data to develop the biomedical reference image archive at EMBL-EBI. Initially the reference image archive will be a part of the EMBL-EBI's BioStudies database - a new resource at EMBL-EBI for archiving multimodal data. The post-holder will develop systems for management of large volumes of image data generated by cutting-edge imaging technologies, including correlative light electron and super-resolution light microscopy and other imaging modalities. Tasks will include the development of the back-end aspects of the data management infrastructure, the associated user-facing software components, and integration with the existing data management systems. The successful applicant will deliver and maintain robust software components and will work in a team with other software engineers, data curators and bioinformaticians. We will also be working closely with the molecular structure database team that runs and develops the Electron Microscopy Data Bank (EMDB) and the Electron Microscopy Pilot Image Archive (EMPIAR). The post holder will report to the Functional Genomics Development team leader. 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. As part of the European Molecular Biology Laboratory (EMBL), we are a non-profit, intergovernmental organisation funded by 22 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 people with a strong interest in software engineering and design - a degree in computer science, mathematics, IT, or a related field is necessary. Experience with imaging data, such as light and/or electron microscopy data, is essential. The post holder will also have a track record of designing and building web-based software infrastructures. Hands-on experience with image data formats, and protocols and systems for large data manipulation (e.g., Aspera, UDT, GridFTP, object stores) is desirable. Bioinformatics, biology, or life science experience would be a strong advantage. The post holder should be able to work independently on assigned tasks, as well as in a small team; take initiative as necessary; think independently and creatively; and deliver results on time. An enthusiasm for solving challenging problems is a must. Ability to efficiently communicate with other group members (software developers and biologists) is important.
- minimum of 3 years' experience in Java programming; J2EE;
- minimum of 5 years' experience with database applications and relational databases: SQL, Oracle and/or MySQL;
- minimum of 5 years’ experience with UNIX/Linux and shell scripting;
- experience with XML and XSLT;
- solving database and application scalability problems;
- knowledge of team working environments (SCC systems, build automation);
- experience with HPC clusters, distributed processing, and/or virtualisation would be an advantage.
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Additional Info:
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