PhD in Software Engineering, Computer Science, Bioinformatics, or related field with 2 years of experience, or a Master's with 5 years in research settings.
Expert knowledge in a biological domain like multimodal single-cell or proteomics.
Extensive experience developing software and analytical tools in Python and R.
Demonstrated AI fluency with modern ML frameworks and computational technologies.
Proven success in managing software projects through the full lifecycle.
Responsibilities
Establish and maintain reusable workflows and visualization tools for proteomics and genomics data.
Evaluate and refine analytical pipelines for research scientists.
Promote standardized data models and centralized repositories for data reuse.
Translate complex analytical needs into modular software components.
Integrate open-source tools and custom software into reliable applications.
Collaborate with interdisciplinary teams to build user-friendly interfaces.
Benefits
Hybrid work schedule with 3 days on campus.
Access to a discretionary annual bonus based on performance.
Comprehensive benefits package available.
Full Job Description
The Opportunity
Genentech is seeking a talented and highly motivated Bioinformatics Software Engineer to join our newly established Computational Sciences Center of Excellence (CoE) within the Analytics and Workflows group. In this role, you will operate at the critical intersection of data science, biology, and software engineering, building scalable tools that bridge the gap between raw experimental data and meaningful biological interpretation. You will work alongside world-class computational biologists, data scientists, and research teams across gRED and pRED to advance drug discovery pipelines and deliver life-changing medicines to patients worldwide.
Establish, optimize, and maintain reusable workflows, core libraries, and interactive visualization tools for the analysis and quality control of proteomics, genetics, and genomics data.
Evaluate, refine, and productionize analytical pipelines that empower research scientists to interrogate complex biology and make data-driven pipeline decisions.
Facilitate seamless data reuse, multimodal analysis, and downstream AI/ML initiatives by promoting standardized data models, metadata tracking, and centralized repositories.
Deeply engage with computational scientists and domain researchers to translate complex analytical needs into robust, modular, and maintainable software components.
Evaluate and combine open-source tools, commercial technologies, and custom in-house software into unified, reliable applications.
Collaborate with interdisciplinary teams of software engineers, computational biologists, and machine learning scientists to build diverse programmatic and user-friendly interfaces.
Who you are
Hold a PhD in Software Engineering, Computer Science, Bioinformatics, or a related quantitative field with at least 2 years of relevant experience, or a Master’s degree with at least 5 years of relevant experience in a clinical, academic, or commercial research setting.
Possess expert knowledge in at least one biological domain—such as multimodal single-cell, proteomics, or large-scale genetic analysis—with a demonstrated track record of rapidly identifying, diagnosing, and mitigating anomalous data or edge cases.
Bring extensive hands-on experience developing robust software and analytical tools within modern Python and R data science ecosystems, frameworks, and web architectures.
Demonstrate AI fluency by actively applying emerging computational technologies, modern ML frameworks, or agentic tooling to optimize scientific workflows and accelerate project deliverables.
Have demonstrated success taking software projects through the full lifecycle—including requirements gathering, design, testing, continuous deployment, documentation, and long-term maintenance.
Preferred
Experience designing and managing FAIR (Findable, Accessible, Interoperable, Reusable) data architectures, including robust data provenance, lineage tracking, and biological data cataloging.
Prior professional experience working within a biotechnology, pharmaceutical, or drug discovery R&D environment.
Proven ability to decompose large, ambiguous scientific problems into clean, modular components, working with high autonomy across concurrent project deadlines.
Experience developing scalable web applications or interactive dashboards (e.g., Shiny, Streamlit, Dash, FastAPI) tailored for biological data visualization.
Location
This role is based in South San Francisco and offers a hybrid schedule working 3 day per week on campus
No relocation benefits are available for this posting
The expected salary range for this position based on the primary location of CA is $142,500 - $264,700. Actual pay will be determined based on experience, qualifications, geographic location, and other job-related factors permitted by law. A discretionary annual bonus may be available based on individual and Company performance. This position also qualifies for the benefits detailed at the link provided below.
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About Roche
Roche Holding AG is a Swiss multinational healthcare company that operates worldwide under two divisions: Pharmaceuticals and Diagnostics. Its holding company, Roche Holding AG, has bearer shares listed on the SIX Swiss Exchange. The company headquarters are located in Basel. Roche is the largest pharmaceutical company in the world, and the leading provider of cancer treatments globally. The company also produces a range of diagnostic tests for medical professionals and patients. Roche was one of the first companies to bring targeted treatments to patients. In 2019, Roche had over 100,000 employees worldwide, and generated revenue of CHF 61.5 billion.
