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Trainee Bioinformatics Software Engineer Jobs in California

Probably Genetic

Senior Software Engineer

San Francisco, CA · On-site

$150K - $210K/yr

About the Role We are looking for a Senior Software Engineer who will contribute to the design and ... Create APIs, laboratory integrations, bioinformatic tooling, and ML infrastructure using Python ...

BillionToOne

Quality Engineer, Prenatal

Union City, CA

$82K - $105K/yr

Lab Operations, Bioinformatics, Process Engineering, Software Engineering, R&D). You will lead the analysis of data to identify improvement initiatives and will execute those process improvements ...

GATC Health

Bioinformatics Analyst - CA

Irvine, CA · On-site

... software development methods and tools in a team environment. • Experience in programming in ... and bioinformatics innovation. Company : GATC Health uses AI to speed drug discovery, predict ...

Mithrl

Bioinformatics Engineer, Pipelines

San Francisco, CA · On-site

$150K - $200K/yr

ABOUT THE ROLE We are looking for a Lead Bioinformatics Pipeline Engineer to build and scale Mithrl ... Previous work in a tech bio startup, biotech R&D group, or scientific software company WHAT YOU ...

Mithrl

Bioinformatics Engineer, Pipelines

San Francisco, CA · On-site

$150K - $200K/yr

ABOUT THE ROLE We are looking for a Lead Bioinformatics Pipeline Engineer to build and scale Mithrl ... Previous work in a tech bio startup, biotech R&D group, or scientific software company WHAT YOU ...

GATC Health

Bioinformatics Analyst - CA

Irvine, CA · On-site

$70K - $85K/yr

... software development methods and tools in a team environment. * Experience in programming in ... Computational biology and bioinformatics innovation. Why Join Us: * Opportunity to work at the ...

GATC Health

Bioinformatics Analyst - CA

Irvine, CA · On-site

$70K - $85K/yr

... software development methods and tools in a team environment. * Experience in programming in ... Computational biology and bioinformatics innovation. $70,000 - $85,000 a year Why Join Us: • ...

Natera

Senior Bioinformatics Scientist

San Carlos, CA · On-site

$130K - $163K/yr

Natera is seeking a Senior Bioinformatics Scientist to join our Bioinformatics team dedicated to ... business professionals, software engineers and many other professionals from world-class ...

Natera

Principal Software Engineer

South San Francisco, CA · Remote

$162K - $217K/yr

Principal Software Engineer Location: South San Francisco, CA preferred; Remote optional Job Type ... or bioinformatics computing, LIMS or laboratory data systems, workflow orchestration engines ...

Natera

Principal Software Engineer

South San Francisco, CA · On-site

$162K - $217K/yr

Principal Software Engineer Location: South San Francisco, CA preferred; Remote optional Job Type ... or bioinformatics computing, LIMS or laboratory data systems, workflow orchestration engines ...

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Trainee Bioinformatics Software Engineer information

What are some common challenges faced by trainee bioinformatics software engineers when transitioning from academic projects to industry roles?

Trainee Bioinformatics Software Engineers often find the shift from academic to industry settings challenging due to differences in project scope, timelines, and collaborative expectations. In industry, there is a greater emphasis on writing maintainable, well-documented code and following software development best practices, such as version control and code reviews. Additionally, trainees must quickly adapt to working in cross-functional teams that include biologists, data scientists, and senior engineers, requiring strong communication and teamwork skills. Managing competing priorities and meeting strict deadlines can also be a new experience compared to the typically flexible timelines of academic research.

What is a trainee bioinformatics software engineer?

A Trainee Bioinformatics Software Engineer is an entry-level professional who assists in developing and maintaining software tools used to analyze biological data, such as DNA sequences or protein structures. They typically work under the supervision of experienced bioinformaticians and software engineers, learning to write code, manage databases, and process complex scientific datasets. The role often requires a mix of programming skills and a basic understanding of biology, allowing trainees to bridge the gap between computational and life sciences. As they gain experience, they contribute more significantly to research projects and the development of new bioinformatics applications.

What are the key skills and qualifications needed to thrive as a trainee bioinformatics software engineer?

To thrive as a Trainee Bioinformatics Software Engineer, you need a strong background in biology, computer science, or a related field, with foundational programming skills in languages like Python or R. Familiarity with bioinformatics tools, databases, and version control systems such as Git is typically required, and coursework or certifications in bioinformatics are advantageous. Analytical thinking, attention to detail, and effective communication are valuable soft skills for collaborating with interdisciplinary teams and interpreting complex data. These competencies enable you to efficiently develop software solutions and contribute to meaningful biological research.

What is the difference between Trainee Bioinformatics Software Engineer vs Junior Bioinformatics Developer?

AspectTrainee Bioinformatics Software EngineerJunior Bioinformatics Developer
Required CredentialsTypically a recent graduate or in early training, with a degree in bioinformatics, computer science, or related fieldsSimilar educational background, often entry-level or with minimal professional experience
Work EnvironmentTraining programs, internships, or entry-level projects within research labs or biotech companiesEntry-level roles in research teams or biotech firms, focusing on developing bioinformatics tools
Employer & Industry UsageUsed by companies and research institutions to train new talent in bioinformatics software developmentCommonly employed in biotech, pharma, and research organizations for initial software development tasks

The main difference is that a Trainee Bioinformatics Software Engineer is in a training or internship phase, focusing on learning and skill development, while a Junior Bioinformatics Developer is an entry-level professional actively contributing to projects. Both roles require similar educational backgrounds but differ in experience level and responsibilities.

What are the most commonly searched types of Bioinformatics Software Engineer jobs in California? The most popular types of Bioinformatics Software Engineer jobs in California are:
What are popular job titles related to Trainee Bioinformatics Software Engineer jobs in California? For Trainee Bioinformatics Software Engineer jobs in California, the most frequently searched job titles are:
What job categories do people searching Trainee Bioinformatics Software Engineer jobs in California look for? The top searched job categories for Trainee Bioinformatics Software Engineer jobs in California are:
What cities in California are hiring for Trainee Bioinformatics Software Engineer jobs? Cities in California with the most Trainee Bioinformatics Software Engineer job openings:
Trainee Bioinformatics Software Engineer jobs near you

Lead Bioinformatics Scientist, NGS

Profluent

Emeryville, CA • On-site, Remote

$160K - $230K/yr

Full-time

Medical, Dental, Vision, Retirement, PTO

Re-posted 24 days ago

Job description

Profluent is the frontier AI lab for biology. Profluent builds powerful foundation models for all of life's molecules, unlocking solutions that transform medicine, agriculture, and beyond. Founded in 2022 and headquartered in Emeryville, CA, Profluent is backed by leading investors including Altimeter Capital, Bezos Expeditions, Spark Capital, Insight Partners, Air Street Capital, AIX Ventures, and Convergent Ventures and has raised over $150M to date.
We're 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. You'll work at the intersection of computational biology, software engineering, and experimental biology to build scalable systems that extract clear, actionable insights from large-scale sequencing data.
In this role, you'll architect core bioinformatics infrastructure, define analytical strategy, and collaborate closely with experimental and ML teams to accelerate design-build-test-learn cycles. You'll also mentor team members, promote software engineering best practices, and help shape the future of Profluent's computational biology capabilities.
Responsibilities
  • Lead design and implementation of scalable NGS analysis pipelines supporting gene editing and protein engineering workflows
  • Develop clear, intuitive visualizations and reports to communicate sequencing results and biological insights
  • Manage cloud-based compute environments and data systems for large-scale datasets
  • Partner with biology teams to analyze results, troubleshoot, and optimize experimental design
  • Collaborate with machine learning teams to curate data for model training
  • Establish best practices for code review, testing, and CI/CD in computational workflows
  • Mentor junior scientists and foster a culture of rigor, reproducibility, and innovation

Qualifications
  • PhD or MS in Bioinformatics, Computational Biology, Computer Science, or a related quantitative field
  • 5+ years of experience analyzing NGS datasets (e.g., amplicon sequencing, high-throughput editing, or screening experiments)
  • Strong programming skills in Python (pandas, numpy, biopython, etc.)
  • Expertise with workflow orchestration tools (Nextflow, Snakemake) and cloud environments (GCP, AWS)
  • Experience with containerization (Docker, Kubernetes) and scalable compute infrastructure
  • Deep understanding of Linux, git-based version control, and software engineering best practices
  • Proven ability to transform complex sequencing data into actionable biological insights

Preferences
  • 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
  • 401(k) with a strong employer match
  • Comprehensive benefits including health/dental/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

Profluent Bio, Inc is an equal opportunity employer promoting diversity and inclusion in the workspace. We do not discriminate on the basis of race, color, religion, marital status, age, national origin, ancestry, physical or mental disability, medical conditions, veteran status, sexual orientation, gender (including gender identity and gender expression), sex (which includes pregnancy, childbirth, and breastfeeding), genetic information, taking or requesting statutorily protected leave, or any other basis protected by law.
Work Authorization Requirement
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.
Employment Eligibility Verification
Legal authorization to work in the United States is required. In compliance with federal law, all persons hired must verify their identity and work eligibility and complete the required employment verification form upon hire.
Hiring Salary Range
$160,000-$230,000 USD

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