Computational Scientist (NGS Analysis) – Profluent
Profluent is an AI-first protein design company founded in 2022. Based in Emeryville, CA, the company develops deep generative models to design and validate novel, functional proteins to revolutionize biomedicine. They are backed by leading investors, including Altimeter Capital, Bezos Expeditions, Spark Capital, Insight Partners, Air Street Capital, AIX Ventures, and Convergent Ventures, and have raised over $150M to date.
Position Summary
We are seeking an experienced computational scientist to lead the design, development, and operation of the NGS analysis platform that powers Profluent’s gene editing and protein design programs. This role sits at the intersection of computational biology, software engineering, and experimental biology to build scalable systems for extracting actionable insights from large-scale sequencing data. You will architect core bioinformatics infrastructure, define analytical strategy, and collaborate closely with experimental and ML teams to accelerate design-build-test-learn cycles. You will also mentor team members, promote software engineering best practices, and help shape the future of Profluent’s computational biology capabilities.
Responsibilities
- Leadership: Lead the design and implementation of scalable NGS analysis pipelines supporting gene editing and protein engineering workflows.
- Visualization: Develop clear, intuitive visualizations and reports to communicate sequencing results and biological insights.
- Infrastructure: Manage cloud-based compute environments and data systems for large-scale datasets.
- Cross-Functional Collaboration: Partner with biology teams to analyze results, troubleshoot, and optimize experimental design.
- Data Integration: Collaborate with machine learning teams to curate data for model training.
- Engineering Standards: Establish best practices for code review, testing, and CI/CD in computational workflows.
- Mentorship: Mentor junior scientists and foster a culture of rigor, reproducibility, and innovation.
Qualifications
- Education: PhD or MS in Bioinformatics, Computational Biology, Computer Science, or a related quantitative field.
- Experience: 5+ years of experience analyzing NGS datasets (e.g., amplicon sequencing, high-throughput editing, or screening experiments).
- Programming: Strong programming skills in Python (pandas, numpy, biopython, etc.).
- Orchestration: Expertise with workflow orchestration tools (Nextflow, Snakemake) and cloud environments (GCP, AWS).
- Infrastructure: Experience with containerization (Docker, Kubernetes) and scalable compute infrastructure.
- Technical Proficiency: Deep understanding of Linux, git-based version control, and software engineering best practices.
- Analysis: Proven ability to transform complex sequencing data into actionable biological insights.
Preferences (Not Required)
- Experience with gene editing technologies (CRISPR, base or prime editing; strongly preferred).
- Familiarity with SQL and data modeling for biological or experimental data.
- Experience with LIMS platforms (e.g., Benchling) and lab data integration.
- Track record of developing production-quality scientific software or open-source bioinformatics tools.
What We Offer
- High-growth opportunity with meaningful impact on the future of protein design.
- Competitive compensation package with equity participation.
- Comprehensive benefits including health, dental, and vision insurance.
- Generous PTO policy and commitment to work-life balance.
- Professional development opportunities in a cutting-edge field at the intersection of AI and biology.
Compensation
- Hiring Salary Range: $160,000 – $230,000 USD.
Profluent Bio, Inc. is an equal opportunity employer. Legal authorization to work in the United States is required. Applicants must have ongoing work authorization in the United States that does not require employer sponsorship. Sponsorship will not be provided now or at any time in the future for this position.
