Full-Time
Bioinformatics Engineer
Axle
201-500 employees
Translational research informatics and data science
Compensation Overview
$125k - $150k/yr
North Bethesda, MD, USA
In Person
On-site role in Rockville, Maryland; no remote work.
 Biology & Biotech (1) |
|---|
Get referred to Axle
Find people who can refer or advise you
- Master's 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 with Nextflow (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, Seurat, Scanpy)
- Evaluate existing bioinformatics pipelines for performance, accuracy, and maintainability, identifying opportunities for optimization and enhancement
- Develop, extend, and maintain Nextflow 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
- PhD in a relevant field
- Experience with nf-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 Shiny, Plotly, custom dashboards)
- Experience in pharmaceutical, biotech, or regulated research environments
- Familiarity with FAIR data principles and metadata standards
Axle Informatics provides specialized informatics solutions for translational research, health informatics, and data science to biomedical research centers and healthcare organizations. Its offerings are customized software and data management platforms that help researchers collect, integrate, analyze, and visualize large research datasets, with end-to-end tools that automate data aggregation and deliver analytics, dashboards, and decision-support features. The company differentiates itself with an integrated, scientifically informed approach that bridges data science with application development, specifically focused on translational research and clinical data work rather than generic software. Axle’s goal is to advance public health by moving biomedical discoveries from the lab to bedside, improving healthcare outcomes.
Company Size
201-500
Company Stage
N/A
Total Funding
N/A
Headquarters
Rockville, Maryland
Founded
2002
Get referred to Axle
Find people who can refer or advise you
Simplify's Take
What believers are saying
- Axle won $21M NIH NCATS STPS contract for scientific support in 2026.
- Axle secured 3-year NIAID VRC/NIC task beating one bidder recently.
- Axle’s ML pipeline boosted NIH funding by 3% averting 20% cuts.
What critics are saying
- NIH FY2026 cuts slash 15% translational research funding in 3-6 months.
- Tempus AI captures 25% NIH bioinformatics contracts in 12-18 months.
- DNAnexus federated platform halts 40% Axle deployments in 6-9 months.
What makes Axle unique
- Axle deploys fine-tuned LLMs for biomedical NLP and sentiment analysis.
- Axle provides Healthcare Authentication Solution reducing fraud in privacy-first care.
- Reid Simon leads AI, Cloud, and Cybersecurity expansions at NIH institutes.
Help us improve and share your feedback! Did you find this helpful?
Benefits
Health Insurance
Dental Insurance
Vision Insurance
Paid Vacation
Paid Holidays
401(k) Company Match
Educational Benefits for Career Growth
Employee Referral Bonus
Flexible Spending Accounts
Company News
Octo, in partnership with Unissant, Axle Informatics, and TRex, has been awarded an IT Infrastructure and Operations Call Order to support the NCI’s OCIO.
For instance, in May 2020, Indica Labs (U.S.), a provider of digital pathology solutions, collaborated with information technology consulting companies, Octo (U.S.) and Axle Informatics (U.S.) and the National Institutes of Health (NIH) (U.S.), to develop an online collection of high-resolution histopathology images of tissues from COVID-19 patients using Indica’s HALO Link platform.