Bioinformatics Engineer

Axle

Job Location:

Rockville, MD - USA

Monthly Salary: $ 125000 - 150000

Posted on: 3 days ago

Vacancies: 1 Vacancy

Job Summary

(ID: 2026-2391)

Axle is a bioscience and information technology company that offers advancements in translational research biomedical informatics and data science applications to research centers and healthcare organizations nationally and abroad. With experts in biomedical science software engineering and program management we focus on developing and applying research tools and techniques to empower decision-making and accelerate research discoveries. We work with some of the top research organizations and facilities in the country including multiple institutes at the National Institutes of Health (NIH).

Axle is seeking a Bioinformatics Engineer to join our vibrant team at the National Institutes of Health (NIH) supporting the Rockville MD.

Benefits We Offer:

100% Medical Dental & Vision Coverage for Employees
Paid Time Off and Paid Holidays
401K match up to 5%
Educational Benefits for Career Growth
Employee Referral Bonus
Flexible Spending Accounts:
- Healthcare (FSA)
- Parking Reimbursement Account (PRK)
- Dependent Care Assistant Program (DCAP)
- Transportation Reimbursement Account (TRN)

Axle is seekinga skilled Bioinformatics Engineer to join our team supporting major pharmaceutical this role you will review assess optimize integrate and extend production-grade bioinformatics workflows for high-throughput sequencing analysis. The ideal candidate combines deep expertise in genomics analysis methods with strong software engineering practices and cloud computing experience.

Key Responsibilities

Evaluate existing bioinformatics pipelines for performance accuracy and maintainability identifying opportunities for optimization and enhancement
Develop extend and maintainNextflow workflows for bulk RNA-seq single-cell RNA-seq DNA variant calling methylation analysis and emerging assay types
Architect scalable solutions capable of processing thousands of samples efficiently on Google Cloud Platform
Optimize data input/output operations across pipeline modules to minimize bottlenecks and reduce computational costs
Prepare and structure analysis outputs for visualization platforms and downstream statistical or machine learning applications
Implement best practices for workflow versioning containerization testing and documentation
Collaborate with computational biologists data scientists and software engineers to integrate pipelines into broader analytical ecosystems
Stay current with advances in sequencing technologies and analytical methods evaluating and incorporating new tools as appropriate

Required Qualifications

Masters degree in bioinformatics computational biology computer science or a related field (or equivalent experience)
3 years of hands-on experience developing and maintaining bioinformatics pipelines in a production environment
Proficiency withNextflow (DSL2) and familiarity with workflow management concepts
Strong experience with RNA-seq analysis (both bulk and single-cell) and DNA sequencing workflows (variant calling methylation)
Working knowledge of Google Cloud Platform services (Compute Engine Cloud Storage Batch Life Sciences API or similar)
Proficiency in Python and/or R for scripting data manipulation and tool development
Experience with containerization technologies (Docker Singularity)
Familiarity with version control systems (Git) and CI/CD practices
Strong understanding of genomic file formats (FASTQ BAM VCF BED) and common bioinformatics tools (STAR Salmon BWA GATK Bismark Cell Ranger SeuratScanpy)

Preferred Qualifications

PhD in a relevant field
Experience withnf-core pipelines and community standards
Familiarity with workflow orchestration at scale (Cromwell AWS Batch or similar platforms)
Experience optimizing cloud costs and resource utilization for large-scale genomics workloads
Knowledge of data visualization tools and frameworks (e.g. R ShinyPlotly custom dashboards)
Experience in pharmaceutical biotech or regulated research environments
Familiarity with FAIR data principles and metadata standards

What We Offer

Opportunity to work on cutting-edge genomics projects with industry-leading pharmaceutical partners
Collaborative environment with experts in bioinformatics data science and software engineering
Professional development and growth opportunities
Competitive salary and benefits package

Disclaimer: The above description is meant to illustrate the general nature of work and level of effort being performed by individuals assigned to this position or job description. This is not restricted as a complete list of all skills responsibilities duties and/or assignments required. Individuals may be required to perform duties outside of their position job description or responsibilities as needed.

The diversity of Axles employees is a tremendous asset. We are firmly committed to providing equal opportunity in all aspects of employment and will not tolerate any illegal discrimination or harassment based on age race gender religion national origin disability marital status covered veteran status sexual orientation status with respect to public assistance and other characteristics protected under state federal or local law and to deter those who aid abet or induce discrimination or coerce others to discriminate.

Accessibility: If you need an accommodation as part of the employment process please contact:

This role has a market-competitive salary with an anticipated base compensation range listed below. Actual salaries will vary depending on a candidates experience qualifications skills and location.

Salary Range

$125000 - $150000 USD

Required Experience:

(ID: 2026-2391)Axle is a bioscience and information technology company that offers advancements in translational research biomedical informatics and data science applications to research centers and healthcare organizations nationally and abroad. With experts in biomedical science software engineeri...