The DOE Joint Genome Institute (JGI) in Walnut Creek, CA (a division of the Lawrence Berkeley National Lab) has an exciting opportunity available for a Microbiome Staff Data Scientist. We are looking for a talented, highly motivated candidate with a deep knowledge of bioinformatics and microbial ecology to join the Environmental Genomics Group. The successful candidate will lead development and application of computational tools for data handling, analysis and visualization for comparative analysis of genomes and metagenomes. The candidate will exercise independent judgment in determining methods and approaches to solving highly complex issues; set priorities and proactively plan for the proper operation of analysis software; and provide technical interpretation and guidance on complex and broad-reaching microbiome data science problems. The candidate will be expected to support a broad portfolio of microbiome projects, including user science through the CSP and FICUS programs, and contribute as a member of a dynamic, multidisciplinary team of biologists, bioinformaticians, computer scientists and software developers. In addition to leading the development and implementation of computational tools for large-scale microbiome data analysis, the successful candidate will be responsible for leading research efforts into large-scale pangenome analyses. Will report to the Metagenome Program Head.
What You Will Do:
Take a lead role and serve as a key contributor that uses special knowledge and technical expertise in developing and managing complex microbiome projects, collaborating with internal and external scientific staff.
Independently troubleshoot and problem-solve varied and complex microbiome data science projects to produce high quality analysis results and products.
Design, benchmark, and apply bioinformatics software to enable analysis and interpretation of genomic and metagenomic data for JGI's user community in line with the Program's strategic objectives and goals.
Streamline support for user science, CSP, and FICUS projects through implementation of advanced analysis pipelines and tools that are production quality and can be broadly applied through microservices in conjunction with the IMG platform.
Work in a high-performance computing environment and interact with a team of computer scientists, software developers and postdoctoral researchers to develop new methods and tools for large-scale microbiome data analysis.
Lead internal research efforts to develop large-scale pangenome analyses to apply to isolate genomes, single-cell genomes and metagenome-assembled genomes.
Present updates at group meetings and lead/contribute to the preparation of scientific publications describing new computational approaches and methods.
Additional Responsibilities as needed:
Train and mentor other team members in performing large-scale microbiome analyses.
Keep accurate and detailed laboratory notebook and actively participate in team meetings.
What is Required:
Bachelor's degree in Bioinformatics, Computational Biology, Computer Science, or related field with a minimum of 8 years of work experience, or an equivalent combination of education and experience. Advanced degree (MS / Ph.D.) preferred.
Demonstrated expertise processing large volumes of data, genome and metagenome data analysis, and comparative metagenomics.
Proven capacity to do innovative and applied work in highly complex and broad-reaching scientific areas.
Extensive knowledge and experience with complex bioinformatics methods and tools, with significant research accomplishments, including a proven publication record.
In-depth experience in the design, development, testing and implementation of software systems/packages, databases and data management through a varied number of interfaces and data types.
Strong decision-making skills to independently make sound judgments and recommend creative solutions to complex problems, while addressing user needs in an effective and timely manner.
Strong analytical, organizational, and record-keeping skills with attention to detail; ability to collect, record, and analyze complex and varied experimental data accurately.
Effective communication and interpersonal skills with internal and external staff, users and collaborators. Excellent public-speaking and presentation skills.
Proven ability to work on multiple projects with varying priorities while meeting tight deadlines.
Flexible with the ability to work independently as well as part of a diverse and dynamic team.
Experience establishing effective collaborations and interacting with members of diverse scientific and informatics communities.
Able to program in Python, Perl, Java, and read/decipher C/C++
Experience and skill in preparing research publications.
Ability to troubleshoot complex systems and data analysis problems.
Ability to contribute to the development of multiple projects/pipelines
Understanding of standard sequencing analysis methods (assembly, gene calling, functional annotation).
Strong problem-solving, decision-making, and analytical skills to make sound judgments and recommend creative solutions to complex problems.
Strong interpersonal skills with the ability work independently and as a team member in a diverse team environment.
Ability to organize and present reports to collaborators, JGI staff, management, and sponsors.
Additional Desired Qualifications:
Experience in customer-service oriented work environment.
Experience in pangenome analyses and advanced microbiome analyses.
The posting shall remain open until the position is filled.
This is a full time, 2 years, 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.
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.
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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.