Bioinformatics Systems Analyst 3 - Genome Curation

Organization: 
Lawrence Berkeley National Laboratory
Job Location: 
Berkeley, CA
Job Description: 

Bioinformatics Systems Analyst 3 - Genome Curation - 76443
Organization: GN-Genomics

The DOE Joint Genome Institute (DOE JGI) a Division of the Lawrence Berkeley National Lab has an exciting opportunity available for an experienced Bioinformatics Analyst. Under general supervision, will be responsible for high-quality curation of genome project catalogs and databases as well as architecture of genome project ontologies and controlled vocabularies for more effective annotation. Will interface with end users and to gather feedback and requirements to improve and develop tools for genome annotation, analysis and visualization and add new features to the software and systems. Will interact with team members as well as a variety of technical, administrative and scientific staff. Position reports to the Genome Biology Group Leader.

Specific Job Duties
Essential
• Interface with end-users and collaborators to gather feedback and requirements.
• Develop tools for genome annotation, analysis and visualization and add new features to existing software and systems.
• Perform high-quality curation of genome and metagenome project metadata for all organisms including projects from the Human Microbiome Project (HMP).
• Create, maintain and document controlled vocabularies pertinent to genome project data, including addition of terms and term relationships for quality and control of annotations.
• Read genome project literature and retrieve specific data for entry to the corresponding databases.
• Collect and organize metagenome metadata (from internal and public databases, collaborators, etc.)
• Troubleshoot diverse and challenging systems and data problems and exercise independent judgment to select appropriate solutions.
• Analyze and propose improvements for the automation of tasks and pipelines and communicate those suggestions to the development team.
• Architect controlled vocabularies and ontologies to improve the organization of metagenomic-related metadata.
• Interact with team members and technical, administrative, and scientific staff.
• Present annotation statistics, metrics and future plans to project team members and other scientists in oral and written forms.

Marginal
• Provide feedback on the flow and quality of data.
• Provide training to other team members.
• Present technical status reports at weekly group meetings.

Requirements: 

Key Success Factors
Essential
• Bachelor's Degree in Molecular Biology, Bioinformatics, Computational Biology, Computer Science, or related field with a minimum of five years of work experience, or an equivalent combination of education and experience (Master's or PhD degree preferred).
• Good knowledge of molecular biology and genetics/genomics.
• Experience processing and troubleshooting large volumes of scientific data.
• Demonstrated experience in a linux environment with the ability to query a database using SQL.
• Good understanding of the fundamentals of various bioinformatics tools, algorithms, and databases, especially Blast but also hmmer, clustalw, phylip, fasta, genbank, bioperl etc.
• Experience writing scripts in Perl for data mining and processing
• Advanced troubleshooting skills with the ability to work independently on end-to-end implementation and maintenance of data analysis projects.
• Detail-oriented with strong organizational skills to address user needs in an effective and timely manner.
• Effective interpersonal skills with the ability to interact effectively with users and staff, and address their needs in an effective and timely manner.

Marginal
• Advanced Degree in Molecular Biology, Bioinformatics, Computational Biology, Computer Science, or related field preferred.
• Experience with software engineering, developing computational methods and algorithms, software tools and databases preferred.

Notes
This is a one year term appointment that may be extended or converted to a career appointment based upon satisfactory job performance, continuing availability of funds, and ongoing operational needs. The work schedule may include nights and weekends. Work will be performed at the DOE Joint Genome Institute (JGI), located in Walnut Creek, CA. Detailed information about the Joint Genome Institute program can be found at: http://www.jgi.doe.gov.

Berkeley Lab is an affirmative action/equal opportunity employer committed to the development of a diverse workforce.

Contact Information: 

How to Apply: http://bit.ly/lbl76443Genomeweb
To apply, please click "apply online" and follow the application instructions.

About Our Organization: 

Lawrence Berkeley National Laboratory (Berkeley Lab) is located in the San Francisco Bay Area on a 200-acre site in the hills above the University of California's Berkeley campus and is managed by the University of California for the U.S. Department of Energy. A leader in science and engineering research for 75 years, Berkeley Lab is the oldest of the U.S. Department of Energy's national laboratories.