Computational Biophysicist - Postdoctoral Researcher
Physical Life Sciences | livermore, CA | 01/31/2024
Job Code: PDS.1 Post-Dr Research Staff 1
Organization: Physical and Life Sciences
Position Type: Post Doctoral
Security Clearance: None/Position does not require US citizenship (assignments longer than 179 days require a federal background investigation)
Drug Test: Required for external applicant(s) selected for this position (includes testing for use of marijuana)
Medical Exam: Not applicable
Join us and make YOUR mark on the World!
Are you interested in joining some of the brightest talent in the world to strengthen the United States’ security? Come join Lawrence Livermore National Laboratory (LLNL) where our employees apply their expertise to create solutions for BIG ideas that make our world a better place.
We are committed to a diverse and equitable workforce with an inclusive culture that values and celebrates the diversity of our people, talents, ideas, experiences, and perspectives. This is essential to innovation and creativity for continued success of the Laboratory’s mission.
NOTE: This is a two-year term appointment with the possibility of extension to a maximum of three years.
We have an opening for a highly motivated Postdoctoral Researcher to conduct research in computational biophysics and simulation, specifically with expertise in molecular dynamics simulations, enhanced sampling of rare events, machine learning, statistical analysis of molecular dynamics simulations and software development. You will be an integral member of an interdisciplinary team working with other national laboratories and companies. You will be responsible for developing new software algorithms, writing code, understanding the requirements for each simulation campaign, and creating innovative analysis tools. You will work with a team of computational biologists, physicists, material scientists, experimental biologist and computer scientists to create a novel machine-learned capability for modeling the conformational dynamics of protein complexes involved in cellular signaling pathways. This position is in the Biochemical and Biophysical Systems group of the Biosciences and Biotechnology Division.
- Conduct advanced independent research to create a novel high performance computing capability for predicting the binding affinities and kinetics of protein-protein interactions at the atomistic and coarse-grained levels.
- Contribute to the software development of high-performance computing tools for robust calculations of binding free-energies and kinetics.
- Develop novel machine-learning based path-sampling methods for estimating protein binding rates and free energies.
- Develop new workflows to analyze and visualize results from complex and large-scale molecular dynamics datasets.
- Develop collaborations with external partners (Universities, Industry, other National Laboratories) to advance computational biology simulation efforts.
- Prepare complex and detailed weekly progress reports to support project needs and deadlines. Prepare complex written analyses and verbal briefings, and present research results at scientific meetings.
- Develop new and innovative research methods relevant to the needs of Laboratory programs and/or external funding agencies and interact with senior project staff and management to influence programmatic decisions.
- Write proposals, secure funding, and establish independent research projects.
- PhD in computer science, computational biology, computational physics, computational chemistry or equivalent combination of education and related experience.
- Knowledge and experience in developing novel machine-learning based methods for enhancing the sampling of rare events, using free energy methods to model protein-protein binding affinities and developing statistical analysis of large-scale molecular dynamics datasets.
- Experience at the postdoctoral or higher level in the fields of molecular dynamics simulations, free energy calculations, transition path theory, enhanced sampling methods, machine learning, and statistical mechanics.
- Demonstrate advanced computer skills including programming experience with Python or C++ in a UNIX environment as well as experience using large high-performance computing clusters, including the use of job schedulers such as SLURM, PBS or Flux.
- Ability to work independently on defined research projects, as well as a member of a large team.
- Ability to develop independent research projects as demonstrated through publication of peer-reviewed manuscripts in the field of molecular modeling and simulations.
- Ability to travel, as necessary, to interact with sponsors, customers and collaborators.
- Proficient written, verbal communication and interpersonal skills necessary to deliver presentations, prepare written reports and to interact with a diverse set of scientists, engineers, and other technical and administrative staff.
Qualifications We Desire:
- Experience in collaborating with experimental biologists as well as understanding and using experimental data in combination with computational research.
- Experience in developing and training machine-learning based models in high-performance computing systems.
- Experience computing binding affinity, stability and/or other metrics using scoring functions like Rosetta.
- Experience with parallel programming tools used to develop high performance code on GPU’s and/or CPU’s, such as OpenMP, MPI, CUDA or OpenCL.
- Experience using collaborative programming workflows and tools such as git, Gitlab, or subversion.
All your information will be kept confidential according to EEO guidelines.
This is a Postdoctoral appointment with the possibility of extension to a maximum of three years, open to those who have been awarded a PhD at time of hire date.
Why Lawrence Livermore National Laboratory?
- Included in 2024 Best Places to Work by Glassdoor!
- Flexible Benefits Package
- Relocation Assistance
- Education Reimbursement Program
- Flexible schedules (*depending on project needs)
- Inclusion, Diversity, Equity and Accountability (IDEA) - visit https://www.llnl.gov/diversity
- Our core beliefs - visit https://www.llnl.gov/diversity/our-values
- Employee engagement - visit https://www.llnl.gov/diversity/employee-engagement
None required. However, if your assignment is longer than 179 days cumulatively within a calendar year, you must go through the Personal Identity Verification process. This process includes completing an online background investigation form and receiving approval of the background check. (This process does not apply to foreign nationals.)
Pre-Employment Drug Test
External applicant(s) selected for this position must pass a post-offer, pre-employment drug test. This includes testing for use of marijuana as Federal Law applies to us as a Federal Contractor.
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