BACKGROUND

RESPONSIBILITIES

• Work on designing and implementing a framework for accurate functional annotation and pathway reconstruction by collating the data and metadata from various data sources, and supporting manual curation efforts.
• Work with the Integrated Microbial Genomes & Microbiomes (IMG) data warehouse team to ensure accurate representation of functional annotation and pathway data in IMG and support for major annotation and pathway analysis needs by IMG users.
• Work with the DOE Systems Biology Knowledgebase (Kbase) team to ensure data portability and support for functional annotation and pathway analysis needs by Kbase users.
• Contribute to the development of IMG pipelines through the selection of appropriate software, benchmarking and testing of existing and newly developed software, and providing feedback to troubleshoot and recommend solutions.
• Create documentation and training materials.

• Independently identify resources of functional annotation and pathway data and develop the software to mine them in an automated manner
• Work with the Integrated Microbial Genomes & Microbiomes (IMG) data warehouse team to implement a scalable and portable pipeline to update functional annotations and pathway reconstructions for thousands of genomes and metagenomes
• Facilitate the training and transfer of knowledge of technologies to other group members in the division.
• Develop qualitative and predictive analytics to inform organizational policy.

REQUIREMENTS

• B.Sc. in bioinformatics, computational science or engineering, or a related discipline or equivalent experience and a minimum of 2 years related work experience or the equivalent combination of education and experience
• Demonstrated experience designing, developing, and testing quality software – preferably using Python in a UNIX/Linux environment
• Knowledge of software development practices – unit testing, self-documenting code, source code management (Git), bug tracking
• Excellent written and oral communications skills and the ability to collaborate and work as part of a large multidisciplinary team
• Ability to apply analytical skills and creativity to solve highly technical/complex problems
• Effective time management, organization, and planning skills with the ability to allocate resources and assign work to meet goals and deadlines
• Detail-oriented with the ability to work effectively in both team and solo environments

• A minimum of 5 years of related experience, or a Master's degree in Bioinformatics, Computer Science, Engineering, or closely related field and a minimum of 3 years related experience
• Experience with modern cluster/cloud/distributed computational and storage systems
• Demonstrated experience in bioinformatics and computational biology methods and tools for pairwise and multiple sequence alignment, profile search, protein clustering and phylogenetic analysis
• Familiarity with major concepts in recording of biochemical reactions and pathways, biological ontologies

TERMS & COMPENSATION

• This is a full time, 1 year, term appointment with the possibility of extension or conversion to Career appointment based upon satisfactory job performance, continuing availability of funds and ongoing operational needs.
• Classification will depend upon the applicant's level of skills, knowledge, and abilities.
• Full-time, M-F, exempt (monthly paid) from overtime pay
• Salary is commensurate with experience.
• This position may be subject to a background check. Any convictions will be evaluated to determine if they directly relate to the responsibilities and requirements of the position. Having a conviction history will not automatically disqualify an applicant from being considered for employment.
• Work will be primarily performed at DOE Joint Genome Institute (JGI) – 2800 Mitchell Dr., Walnut Creek, CA.

ABOUT US

HOW TO APPLY

DEADLINE

POLICY