Bioinformatics Systems Analyst 3/4 - Genomics Standards Group Lead

Lawrence Berkeley National Laboratory
Job Location: 
Walnut Creek, CA
Job Description: 

Bioinformatics Systems Analyst 3/4 - Genomics Standards Group Lead - 76384
Organization: GN-Genomics

The DOE Joint Genome Institute (JGI) in Walnut Creek, CA, a division of the Lawrence Berkeley National Lab has an exciting opportunity available for experienced Bioinformatics Analyst. Will work as an Analyst in the Prokaryotic Super program, and serve as the Lead of the Genomics Standards Group. Will work closely with the microbial and metagenomics programs and will lead the development of the Genomics OnLine Database, including the integration of project and metadata information. In addition, will work on complex analysis, evaluation and implementation of controlled vocabularies for the description of metadata in coordination with the JGI’s integrating tracking system, the Genomics Standards Consortium and other ontologies. Some local travel may be required. This position will be under the general supervision of, and will report to, the Prokaryotic super program head.

The selected candidate will be hired at the Systems Analyst 3 or 4 classification level depending upon the candidate's level of experience and qualifications.

Specific Job Duties
• Serve as the primary point of contact on metadata standards, and oversee and manage the daily activities of the genomics standards group.
• Maintain and expand controlled vocabularies for the description of microbial genomic and metagenomeic projects, in coordination with the Genomics Standards Consortium (GSC).
• Monitor publicly available genomic and metagenomic sequencing projects world-wide and collect, verify and improve their associated metadata.
• Collaborate with NCBI on project and metadata submission.
• Assist with data and system requirements for the development of the GOLD database including analyzing and evaluating user problems and develop systems recommendations to meet requirements.
• Work closely with biologists and other members of the department in updating and utilizing multiple sources of biological data.
• Develop visualization tools, troubleshoot and solve diverse and challenging problems and exercise independent judgment to select appropriate solutions.
• Supervises the genomics standards group members.
• Strategic planning and implementation skills at a management level.

• Provide feedback on the flow and quality of data.
• Train other team members in on the use of the GOLD database.
• Present technical status reports at weekly group meetings.

Essential Duties for the Systems Analyst 4 - In addition to the required duties for a level 3, the Systems Analyst 4 will:
• Work at a higher level of independence and responsibilities in carrying out assignments
• Will serve as a technical project lead and key contributor called upon to troubleshoot and solve highly technical, complex problems.


Key Success Factors
• Typically requires a bachelor's degree in Biology, Life Sciences, Bioinformatics, Computer Science or related field with a minimum of five years relevant experience, or an equivalent combination of education and experience. Advanced degree preferred.
• Experience with developing Information Extraction and other text mining tools from natural language resources.
• Experience with extraction and usage of metadata from external databases, ontologies and controlled vocabularies.
• Experience working with relational databases.
• Demonstrated experience in biological data curation. Experience with metadata curation and Ontologies a plus.
• Familiarity with source code control tools (CVS) and tools commonly used in bioinformatics.
• Advanced analytical, problem-solving and decision-making skills to independently make sound judgments and creative solutions to complex problems.
• Effective interpersonal skills with the ability to interact effectively with users and staff, and address their needs in an effective and timely manner.
• Ability to work independently as well as part of a diverse and dynamic team.
• Excellent organizational, analytical, and record-keeping skills with the ability organize and present technical reports to collaborators, JGI staff, management, and sponsors.
• Demonstrated ability to accurately and eloquently represent and promote scientific projects to audiences of diverse technical backgrounds.
• Effective interpersonal skills with experience establishing effective collaborations and interacting with members of the scientific, instrumentation, and informatics communities.
• Excellent written communication skills with demonstrated experience preparing funding proposals and research publications.

• Experience with software engineering, developing computational methods and algorithms, software tools and databases.
• Demonstrated success designing and developing software in a scientific or technical environment.

Essential Qualifications for the Systems Analyst 4 - In addition to the required qualifications for the Analyst 3, the Analyst 4 will have:
• M.S./Ph.D. degree in Biology, Bioinformatics, Computer Science or related field with a minimum of seven years of work experience, or an equivalent combination of education and experience.
• Extensive genomic analysis software experience and substantial knowledge of various bioinformatics algorithms related to sequence analysis.
• Ability to troubleshoot complex software issues.

This is a 1 year term appointment with the possibility of renewal and with the possibility of conversion to career based upon satisfactory job performance, continuing availability of funds, and ongoing operational needs. Work will be performed at the DOE Joint Genome Institute (JGI) Genomics Facility in Walnut Creek, CA. Job may require occasional travel, weekend, and after-hours work. Detailed information about the Joint Genome Institute program can be found on the World Wide Web at the following location:

Berkeley Lab is an Affirmative Action/Equal Employment Opportunity employer committed to the development of a safe and diverse workforce.

Contact Information: 

How To Apply
Apply directly online at and follow the on-line instructions to complete the application process.

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.