Bioinformatics Software Engineer Jobs in Austin, TX

Work Schedule

Environmental Conditions

Job Description

At Thermo Fisher Scientific, our mission is to enable our customers to make the world healthier, cleaner, and safer. Within the Clinical Sequencing Division, bioinformatics plays an important role in enabling precision oncology diagnostics and advancing genomic medicine.

Location/Division-Specific Information:

Carlsbad, CA, or Austin, TX. Relocation assistance is NOT provided. 

*Must be legally authorized to work in the United States without sponsorship.

*Must be able to pass a comprehensive background check, which includes a drug screen.

Discover Impactful Work:

As a Scientist III, Bioinformatics, you will contribute to the development and maintenance of bioinformatics applications, data systems, and computational workflows that support next-generation sequencing (NGS) companion diagnostic (CDx) assay development.

In this role, you will collaborate with scientists, engineers, and cross-functional partners to develop tools and workflows that support genomic data analysis, assay development, and regulated diagnostic programs. Your work will help ensure that bioinformatics systems supporting diagnostic development are reliable, reproducible, and well-documented.

You will also contribute to emerging initiatives that explore the use of AI-enabled tools to enhance bioinformatics workflows, data analysis, and internal scientific applications.

This position combines bioinformatics expertise with scientific software development to support scalable genomic analysis and integration with laboratory and data management systems.

A Day in the Life:

Bioinformatics Application Development

Develop and maintain internal bioinformatics applications and computational tools to support genomic data analysis and the development of companion diagnostic assays.

Workflow and Pipeline Development

Implement and improve automated workflows for next-generation sequencing (NGS) data processing and analysis using scripting languages and workflow frameworks.

Data Systems and Integration

Support development and integration of bioinformatics workflows with data systems, databases, and laboratory information management systems (LIMS).

AI-Enabled Workflow Support

Contribute to the evaluation and integration of AI-enabled tools that enhance bioinformatics workflows, scientific data analysis, and internal research applications.

Cross-Functional Collaboration and Documentation

Work with scientists, engineers, and program teams to develop computational solutions supporting diagnostic development and document workflows to ensure reproducibility and maintainability within regulated environments.

Keys to Success

Education

Bachelor’s in Bioinformatics, Computational Biology, Computer Science, Molecular Biology, or a related field required.

Experience

• 5 years of experience in bioinformatics and NGS data analysis (Advanced degree plus 3 years of experience).
• Experience programming in Python or a similar language.
• Experience working in Linux or Unix environments.
• Experience developing or supporting bioinformatics pipelines or analysis tools.
• Familiarity with next-generation sequencing (NGS) data analysis.
• Experience using version control systems such as Git.
• Experience collaborating with cross-functional scientific teams.

Knowledge, Skills, and Abilities

Programming and Scientific Computing

• Proficiency in Python or similar programming languages.
• Experience developing scripts, tools, or applications for scientific data analysis.
• Familiarity with software development practices such as version control and documentation.

Bioinformatics and Genomics

• Understanding of common bioinformatics workflows and sequencing data formats.
• Experience working with genomic datasets.

Data Systems

• Familiarity with databases or structured data systems (e.g., SQL).
• Experience working with large or complex scientific datasets.

Workflow and Infrastructure

• Familiarity with workflow frameworks such as Nextflow, Snakemake, or similar tools.
• Experience with container technologies such as Docker is helpful.
• Exposure to cloud computing platforms such as AWS or GCP is beneficial.

AI and Emerging Technologies

• Exposure to AI or machine learning tools used in scientific computing or data analysis is a plus.
• Interest in applying AI-enabled tools to improve scientific workflows.

Collaboration and Communication

• Ability to communicate technical information clearly.
• Ability to work effectively in collaborative, multidisciplinary teams.
• Strong problem-solving and analytical skills.

Benefits:

We offer competitive remuneration, annual incentive plan bonus, healthcare, and a range of employee benefits. Thermo Fisher Scientific offers employment with an innovative, forward-thinking organization, and outstanding career and development prospects. We offer an exciting company culture that stands for integrity, intensity, involvement, and innovation!

Compensation and Benefits

This position may also be eligible to receive a variable annual bonus based on company, team, and/or individual performance results in accordance with company policy. We offer a comprehensive Total Rewards package that our U.S. colleagues and their families can count on, which includes:

• A choice of national medical and dental plans, and a national vision plan, including health incentive programs

• Employee assistance and family support programs, including commuter benefits and tuition reimbursement

• At least 120 hours paid time off (PTO), 10 paid holidays annually, paid parental leave (3 weeks for bonding and 8 weeks for caregiver leave), accident and life insurance, and short- and long-term disability in accordance with company policy

• Retirement and savings programs, such as our competitive 401(k) U.S. retirement savings plan

• Employees’ Stock Purchase Plan (ESPP) offers eligible colleagues the opportunity to purchase company stock at a discount

For more information on our benefits, please visit: https://jobs.thermofisher.com/global/en/total-rewards