The Department of Energy (DOE) Joint Genome Institute (JGI) (a division of the Lawrence Berkeley National Lab) has an exciting opportunity available for a Computational Biologist Postdoctoral Scholar to participate in ongoing research in the Viral Dark Matter project. JGI has been instrumental in driving the characterization of Earth's Virome towards a better understanding of its role in regulating microbial communities. We are looking for a talented, highly motivated candidate with a strong background in microbiology, virology, host-virus interactions, metagenomics. computational biology and bioinformatics to join our team. You will be expected to perform viral genomics research, with a strong emphasis on systems level characterization, analysis and understanding of soil virome from metagenomics & metatranscriptomic data. This role will work as part of the Prokaryotic Super Program and is expected to work independently, as well as contribute as a member of a dynamic, multidisciplinary team of biologists, bioinformaticians, computer scientists and software developers. You will report to the Prokaryotic Program head.
What You Will Do:
Perform large scale analysis of viral genome sequence data, analyze metagenomics sequences, and perform comparative analyses.
Contribute to research in the Viral Dark Matter project as part of a large multidisciplinary team.
Interrogation and interpretation of soil microbial and viral metagenome and metatranscriptome datasets.
Utilize scripting language(s) and apply standard bioinformatics tools and pipelines for the analysis of genomic and metagenomic data.
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 metagenome data analysis.
Perform comparative analysis across hundreds of metagenomic data and billions of genes.
Develop statistical methods to compare different samples/communities.
Prepare research results for publication and for presentations at scientific meetings.
Application of standard bioinformatics tools for the analysis of genomic/metagenomic data.
Design and implementation of new approaches for soil virome analysis.
Publish in peer review journals and deliver scientific presentations at scientific meetings.
Additional Responsibilities as needed:
Development of software for organization and handling of metagenomic data and automation of analytical procedures.
Develop and present updates and reports at group meetings.
Support the development of user interface for navigation and data comparisons across thousands of genomic/metagenomic samples.
What Is Required:
Recent Ph.D. (within the last 4 years) in Bioinformatics, microbiology, virology, or a related discipline with training/experience in bioinformatics.
Experience in any of the following areas: viral genomics, metagenomics, microbial ecology.
Strong experience in analysis of microbial/viral genomes and metagenomes is essential with a proven track record in this area reflected in recent or pending publications.
Strong experience with UNIX utilities and filesystems.
Familiar with command line sequence analysis tools e.g. Last, Hmmer, Megahit, MetaSpades, etc.
Strong experience in scripting tools in order to mine data files.
Good experience with processing and analysis of genomic/metagenomic data.
Good experience with using standard bioinformatics tools and databases.
Knowledge of Biology/Biochemistry and understanding of key and complex biological concepts (genes, pathways, microbial phylogeny).
Ability to independently carry out creative research with tenacity and of the highest quality standards.
Demonstrated ability to conduct and perform collaborative research and effectively interact with a broad range of colleagues with tact and diplomacy.
Excellent organizational, analytical, and record-keeping skills with the ability to 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.
Additional Desired Qualifications:
Experience programming in Python, Bash scripting and familiarity with Linux/Unix.
Experience with the R statistical analysis platform.
Experience with machine learning.
The posting shall remain open until the position is filled, however for full consideration, please apply by close of business on May 4, 2018.
This is a full time, 3 year, postdoctoral appointment with the possibility of renewal based upon satisfactory job performance, continuing availability of funds and ongoing operational needs. You must have less than 2 years paid postdoctoral experience. Salary for Postdoctoral positions depends on years of experience post-degree.
Full-time, M-F, exempt (monthly paid) from overtime pay.
This position is represented by a union for collective bargaining purposes.
Salary will be predetermined based on postdoctoral step rates.
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.
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.
Equal Employment Opportunity: Berkeley Lab is an Equal Opportunity/Affirmative Action Employer. All qualified applicants will receive consideration for employment without regard to race, color, religion, sex, sexual orientation, gender identity, national origin, disability, age, or protected veteran status. Berkeley Lab is in compliance with thePay Transparency Nondiscrimination Provisionunder 41 CFR 60-1.4. Clickhere to view the poster and supplement: "Equal Employment Opportunity is the Law."
Internal Number: 84499
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.