Berkeley Lab's Joint Genome Institute (JGI) Division has an opening for an NMDC Metadata Curator. This is an exciting career opportunity available for a microbiome researcher with an interest/experience in high-quality curation of genome and metagenome projects and associated metadata.
The Department of Energy is funding a pilot program, the "National Microbiome Data Collaborative" (NMDC) which aims to address many of the pressing issues in microbiome research, including data integration, making data FAIR (findable, accessible, interoperable, and reusable) and establishing standardized workflows for data processing.
In this role as an NMDC Metadata Curator/Data Scientist, you will work closely with a highly motivated team of Genomes OnLine Database (GOLD) curation and software development professionals. In this position, you will be responsible for developing genome/metagenome project and metadata ontologies and controlled vocabularies for more effective comparative analysis of genomic data. Will interface with end users to gather feedback and requirements to improve metadata annotation. Will interact with team members as well as technical, administrative and scientific staff. The position reports to the Genomic Standards Group Leader at the Joint Genome Institute in Berkeley, CA.
Metadata Curator/Data Scientist 2 will:
Perform high-quality curation of genome and metagenome project metadata.
Perform literature search and curate organism and ecosystem metadata.
Create, maintain and document controlled vocabularies relevant to genome project data, including the addition of terms and term relationships for quality and control of annotations.
Collect and organize genome and metagenome metadata from internal and public databases (NCBI, SRA), collaborators. etc.
Troubleshoot diverse/ challenging systems and data problems and 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 genomic and metagenomic-related metadata.
Work with GOLD metadata/controlled vocabulary terms as per Genomic Standards Consortium and map those term to other ontologies like The Environment Ontology (EnvO).
Present statistics, metrics and future plans to project team members and other scientists in oral and written forms.
In addition to the above, the Metadata Curator/Data Scientist 3 responsibilities include:
Coordinate and/or lead the responsibilities in carrying out assignments.
Train new group members/student assistants on metadata curation.
Provide feedback on the flow and quality of data.
Interface with end-users and collaborators to gather feedback and requirements.
Present technical status reports at weekly group meetings.
What is Required for Metadata Curator/Data Scientist 2:
Bachelor's degree in Molecular Biology, Bioinformatics, Computational Biology, Computer Science, or related field plus a minimum of five years of relevant work experience, or an equivalent combination of education and experience.
Knowledge of Microbiology, Microbial ecology and genetics/genomics.
In addition to the above, the Metadata Curator/Data Scientist 3 requirements include:
Advanced degree in Molecular Biology, Bioinformatics, Computational Biology, or related field.
Minimum of 8 years of related experience with a Bachelor's degree; or 6 years and a Master's degree; or equivalent experience.
Demonstrated ability to work independently and collaboratively and as a team member in a diverse team environment.
Additional Preferred Qualifications for Metadata Curator/Data Scientist 2:
Master's degree or equivalent work experience in related areas.
Experience in processing and troubleshooting large volumes of scientific data.
Experience in using SQL is desirable, but not required.
Understanding of the fundamentals of various biological databases concepts and principles.
Advanced troubleshooting skills with the ability to work independently on end-to-end implementation and maintenance of metadata curation/acquisition protocols.
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.
Experience with biological databases either as end user or as metadata curator.
Excellent written and oral communication.
Preferred qualifications for the Metadata Curator/Data Scientist 3:
Demonstrated experience in using SQL.
Experience in leading data curation projects independently.
The posting shall remain open until the position is filled.
This is a full time, 2-year term appointment with the possibility of extension or conversion to Career appointment based upon satisfactory job performance, continuing the availability of funds and ongoing operational needs.
Classification will depend upon the applicant's level of skills, knowledge, and abilities. This position will be filled at the Metadata Curator/Data Scientist 2 or Metadata Curator/Data Scientist 3 level, dependent on experience.
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 Lawrence Berkeley National Lab, 1 Cyclotron Road, Berkeley, CA.
JGI & Berkeley Lab: A View to Fuel Innovative Science in the Public Interest
They say it's all about location and Berkeley Lab has it all: a view above the San Francisco Bay, cool breezes, and world-class science within a diverse, respectful research ecosystem of 5,000 people. Nearly 90 years ago, Ernest Orlando Lawrence, the inventor of the cyclotron, brought physicists, biologists, engineers and mathematicians together in Berkeley above the University of California campus to tackle the most urgent scientific challenges. Today, after garnering 13 Nobel Prizes, Berkeley Lab has sustained and grown that tradition of open, interdisciplinary team science, exemplified by how the U.S. Department of Energy Joint Institute (JGI) addresses the most pressing energy and environmental challenges. This summer, JGI takes up residence in the new, state-of-the-art Integrative Genomics Building (IGB) along with the U.S. Department of Energy Systems Biology Knowledgebase (KBase) to expand the frontiers of energy and environmental science in partnership with the worldwide community of researchers. Will you join us and be a critical part of the next ground-breaking discoveries in the public interest?
The JGI is comprised of highly-skilled and diverse talent founded on a culture of scientific excellence, trust, curiosity, passion, and collaboration.
Working at Berkeley Lab has many rewards including a competitive compensation program, excellent health and welfare programs, a retirement program that is second to none, and outstanding employee development opportunities. To view information about the many rewards that are offered at Berkeley Lab- Click Here.
Berkeley Lab (LBNL) addresses the world's most urgent scientific challenges by advancing sustainable energy, protecting human health, creating new materials, and revealing the origin and fate of the universe. Founded in 1931, Berkeley Lab's scientific expertise has been recognized with 13 Nobel prizes. The University of California manages Berkeley Lab for the U.S. Department of Energy's Office of Science.
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About Lawrence Berkeley National Laboratory
In the world of science, Lawrence Berkeley National Laboratory (Berkeley Lab) is synonymous with excellence. Thirteen scientists associated with Berkeley Lab have won the Nobel Prize. Fifty-seven Lab scientists are members of the National Academy of Sciences (NAS), one of the highest honors for a scientist in the United States. Thirteen of our scientists have won the National Medal of Science, our nation's highest award for lifetime achievement in fields of scientific research. Eighteen of our engineers have been elected to the National Academy of Engineering, and three of our scientists have been elected into the Institute of Medicine. In addition, Berkeley Lab has trained thousands of university science and engineering students who are advancing technological innovations across the nation and around the world. Berkeley Lab is a member of the national laboratory system supported by the U.S. Department of Energy through its Office of Science. It is managed by the University of California (UC) and is charged with conducting unclassified research across a wide range of scientific disciplines. Located on a 200-acre site in the hills above the UC Berkeley campus that offers spectacular... views of the San Francisco Bay, Berkeley Lab employs approximately 4,200 scientists, engineers, support staff and students. Its budget for 2011 is $735 million, with an additional $101 million in funding from the American Recovery and Reinvestment Act, for a total of $836 million. A recent study estimates the Laboratory's overall economic impact through direct, indirect and induced spending on the nine counties that make up the San Francisco Bay Area to be nearly $700 million annually. The Lab was also responsible for creating 5,600 jobs locally and 12,000 nationally. The overall economic impact on the national economy is estimated at $1.6 billion a year. Technologies developed at Berkeley Lab have generated billions of dollars in revenues, and thousands of jobs. Savings as a result of Berkeley Lab developments in lighting and windows, and other energy-efficient technologies, have also been in the billions of dollars. Berkeley Lab was founded in 1931 by Ernest Orlando Lawrence, a UC Berkeley physicist who won the 1939 Nobel Prize in physics for his invention of the cyclotron, a circular particle accelerator that opened the door to high-energy physics. It was Lawrence's belief that scientific research is best done through teams of individuals with different fields of expertise, working together. His teamwork concept is a Berkeley Lab legacy that continues today.