Machine Learning Scientist, Foundation Virtual Staining Models (Computational Microscopy - Biohub SF)

The Chan Zuckerberg Biohub San Francisco (CZ Biohub SF) (https://www.czbiohub.org/sf/) is an independent nonprofit research institute that brings together three powerhouse universities - Stanford, UC Berkeley, and UC San Francisco - into a single collaborative technology and discovery engine. CZ Biohub SF itself supports some of the brightest, boldest engineers, data scientists, and biomedical researchers to investigate the fundamental mechanisms underlying disease and develop new technologies that will lead to actionable diagnostics and effective therapies. We are guided by our values of scholarly excellence; disruptive innovation; hands-on engineering/hacking/building; partnership and collaboration; open communication and respect; inclusiveness; and opportunity for all.

Our Vision

• We pursue large scientific challenges that cannot be pursued in conventional environments
• We enable individual investigators to pursue their riskiest and most innovative ideas
• The technologies developed at CZ Biohub San Francisco facilitate research by scientists and clinicians at our home institutions and beyond

Diversity of thought, ideas, and perspectives are at the heart of CZ Biohub Network and enable disruptive innovation and scholarly excellence. We are committed to cultivating an inclusive organization where all colleagues feel inspired and know their work makes an important contribution.

The Opportunity

Reporting to the Platform Leader of Computational Microscopy, the Machine Learning Scientist will have the primary responsibility for developing innovative and impactful AI/ML models of intracellular dynamics and accelerating CZ Biohub’s ambitious goals of mapping dynamic cell systems across biological scales. Please include a cover letter describing the match between your career trajectory and this role (required). If you have letters of recommendation that you would like to share before the interviews, please mention in the cover letter.

You will 

• Design imaging experiments in collaboration with experimental colleagues. You will need to be able to join the colleagues in BSL2 (Biosafetly level 2) laboratory to discuss experiments and data
• Develop explainability methods that provide actionable insights in model performance and testable biological hypotheses for interactions among organelles and cells in the presence of intrinsic and extrinsic perturbations
• Contribute to and extend our computational pipelines (e.g., https://github.com/mehta-lab/VisCy/) for training models with terabyte-scale imaging data acquired with high throughput live cell screens
• Train, deploy, and maintain state-of-the-art deep learning models for use by biologists within the CZ Biohub, partner universities, and beyond
• Demonstrate scholarly excellence with regular dissemination of the findings via papers, presentations, and computational demonstrations

You have

Essential –

• MS degree with 3 years of relevant experience or a recent PhD degree in computer science, bioimaging, clinical imaging, computer vision, bioengineering, or a related field with AI/ML research experience
• 3+ years of experience with Python and relevant deep learning frameworks (PyTorch, JAX, etc.)
• Strong mathematical foundation in linear algebra, calculus, and optimization algorithms
• Track record of preprints or publications focused on computer vision for imaging data
• Experience working in Linux environments and familiarity with version control systems (eg. git)
• Experience working with terabyte-scale datasets and training large AI/ML models
• An appetite to study and build on state-of-the-art research in AI/ML for cell biology
• Strong interpersonal skills with excellent written and verbal communication skills
• Ability to respond quickly to data and needs of colleagues, and prioritize work efficiently

Nice to have -

• Ability and interest in contributing to community standards and open source ecosystem
• Demonstrated problem-solving abilities and judgement to drive success in a dynamic field
• Experience with cell biology and data visualization methods relevant to cell biology
• Experience using hyperparameter optimization and MLOps frameworks (PyTorch Lightning, Optuna, MLFlow)

Compensation

The San Francisco, CA base pay range for this role is  Machine Learning Scientist I = $131,000.00 - $180,400.00 and Machine Learning Scientist II = $150,000.00 - $205,700.00. New hires are typically hired into the lower portion of the range, enabling employee growth in the range over time. Actual placement in range is based on job-related skills and experience, as evaluated throughout the interview process. 

What We Provide

• Resources to disrupt and innovate at the frontiers of our knowledge of biology and disease
• A collegial and collaborative environment consisting of diverse expertise
• Access to collaborators, resources and facilities at our three partner universities (Stanford University, UC Berkeley, and UC San Francisco) and at partner organizations in the SF Bay Area and beyond
• Competitive compensation and benefits commensurate with the experience

If you’re interested in a role but your previous experience doesn’t perfectly align with each qualification in the job description, we still encourage you to apply as you may be the perfect fit for this or another role.

Benefits

We offer a robust benefits program that enables the important work Biohubbers do everyday. Our benefits include healthcare coverage, life and disability insurance, commuter subsidies, family planning services with fertility care, childcare stipend, 401(k) match, flexible time off and a generous parental leave policy. In addition, we honor our commitment to career development and our value of scholarly excellence through regular onsite opportunities to learn from the world's leading scientists.

The CZ Biohub Network is an equal opportunity employer committed to diversity of thought, ideas and perspectives. We are committed to cultivating an inclusive organization where all Biohubbers feel inspired and know their work makes an important contribution. Therefore, we provide employment opportunities without regard to age, race, color, ancestry, national origin, religion, disability, sex, gender identity or expression, sexual orientation, or any other protected status in accordance with applicable law.

Pursuant to the California Fair Chance Act, we will consider for employment qualified applicants with arrest and conviction records.

Headhunters and recruitment agencies may not submit resumes/CVs through this website or directly to managers. The CZ Biohub Network does not accept unsolicited headhunter and agency resumes. The CZ Biohub Network will not pay fees to any third-party agency or company that does not have a signed agreement with the CZ Biohub Network.