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Bioinformatics Programmer Analyst Jobs in Maryland

Axle

Bioinformatics Engineer

Rockville, MD · On-site

Axle is seeking a Bioinformatics Engineer to join our vibrant team at the National Institutes of ... The ideal candidate combines deep expertise in genomics analysis methods with strong software ...

Axle

Bioinformatics Scientist

Bethesda, MD · On-site

What programming languages are you comfortable using for bioinformatics data analysis? * What bioinformatics areas are you familiar with? (e.g., single cell, bulk genomics, transcriptomics ...

Axle

Bioinformatics Scientist

Bethesda, MD

What programming languages are you comfortable using for bioinformatics data analysis? * What bioinformatics areas are you familiar with? (e.g., single cell, bulk genomics, transcriptomics ...

Axle

Bioinformatics Scientist

Bethesda, MD

What programming languages are you comfortable using for bioinformatics data analysis? * What bioinformatics areas are you familiar with? (e.g., single cell, bulk genomics, transcriptomics ...

Guidehouse

Bioinformatics Scientist

Bethesda, MD · On-site

$65K - $108K/yr

... and bioinformatics analysis. This position is a full-time position located in Bethesda, MD ... Provide programming and troubleshooting support to the Federal Government in the dissemination of ...

Guidehouse

Bioinformatics Scientist

Bethesda, MD · On-site

$65K - $108K/yr

... and bioinformatics analysis. This position is a full-time position located in Bethesda, MD ... Provide programming and troubleshooting support to the Federal Government in the dissemination of ...

micro1 AI

Bioinformatics Software Engineer

Baltimore, MD · Remote

$80 - $110/hr

Analyze and interpret small-molecule and drug discovery datasets using advanced computational biology, bioinformatics, and cheminformatics methods. * Curate, annotate, and validate chemical and ...

Axle

Bioinformatics/Data Scientist

Frederick, MD · On-site

What programming languages are you comfortable using for bioinformatics data analysis? * What bioinformatics areas are you familiar with? (e.g., single cell, bulk genomics, transcriptomics ...

Axle

Bioinformatics/Data Scientist

Frederick, MD

What programming languages are you comfortable using for bioinformatics data analysis? * What bioinformatics areas are you familiar with? (e.g., single cell, bulk genomics, transcriptomics ...

Axle

Bioinformatics/Data Scientist

Frederick, MD · On-site

What programming languages are you comfortable using for bioinformatics data analysis? * What bioinformatics areas are you familiar with? (e.g., single cell, bulk genomics, transcriptomics ...

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All JobsBioinformatics Programmer Analyst JobsBioinformatics Programmer Analyst Jobs in Maryland

Bioinformatics Programmer Analyst information

What is a bioinformatics programmer analyst?

A Bioinformatics Programmer Analyst is a professional who combines knowledge of biology, computer science, and statistics to manage, analyze, and interpret complex biological data, often using programming and software development skills. They typically work with large datasets such as genomic sequences, gene expression profiles, or proteomics data to derive meaningful insights for research or clinical applications. Their role often involves developing software tools, writing scripts for data analysis, and collaborating with biologists and other scientists to solve research problems. Bioinformatics Programmer Analysts are essential in fields like genomics, pharmaceutical research, and personalized medicine.

What are some common challenges faced by bioinformatics programmer analysts when integrating new data types into existing pipelines?

Bioinformatics Programmer Analysts often encounter challenges such as data heterogeneity, inconsistent formats, and varying quality when integrating new data types into established analysis pipelines. Addressing these issues requires careful data preprocessing, validation, and sometimes developing custom scripts or modules to ensure compatibility. Collaboration with biologists and data scientists is essential to understand the context of the new data and to tailor solutions that maintain the reliability and reproducibility of results. Staying adaptable and up-to-date with evolving bioinformatics tools and standards also helps in overcoming these integration challenges.

What are the key skills and qualifications needed to thrive as a bioinformatics programmer analyst?

To thrive as a Bioinformatics Programmer Analyst, you need strong programming skills (such as Python, R, or Perl), a background in biology or bioinformatics, and typically a bachelor's or master's degree in a relevant field. Familiarity with bioinformatics tools, databases (like NCBI, Ensembl), and experience using Linux environments and version control systems (like Git) are essential. Analytical thinking, problem-solving abilities, and effective communication are crucial soft skills for interpreting data and collaborating with research teams. These competencies are vital for accurately analyzing biological data and delivering actionable insights in research or clinical settings.

What is the difference between Bioinformatics Programmer Analyst vs Bioinformatics Data Scientist?

AspectBioinformatics Programmer AnalystBioinformatics Data Scientist
Required CredentialsBachelor's in Bioinformatics, Computer Science, or related field; programming skillsBachelor's or Master's in Bioinformatics, Data Science, or related; strong statistical and programming skills
Work EnvironmentResearch labs, biotech companies, healthcare institutionsResearch institutions, biotech firms, healthcare analytics
Employer & Industry UsageUsed in biotech, pharma, healthcare for data analysis and software development

The Bioinformatics Programmer Analyst primarily focuses on developing software tools and analyzing biological data using programming skills. In contrast, the Bioinformatics Data Scientist emphasizes statistical analysis and data modeling to interpret complex biological datasets. Both roles require strong programming knowledge and are common in biotech and healthcare industries, but their core responsibilities differ in software development versus data analysis.

What are popular job titles related to Bioinformatics Programmer Analyst jobs in Maryland? For Bioinformatics Programmer Analyst jobs in Maryland, the most frequently searched job titles are:
What job categories do people searching Bioinformatics Programmer Analyst jobs in Maryland look for? The top searched job categories for Bioinformatics Programmer Analyst jobs in Maryland are:
What cities in Maryland are hiring for Bioinformatics Programmer Analyst jobs? Cities in Maryland with the most Bioinformatics Programmer Analyst job openings:
Bioinformatics Programmer Analyst jobs near you
Infographic showing various Bioinformatics Programmer Analyst job openings in Maryland as of June 2026, with employment types broken down into 90% Full Time, 6% Part Time, and 4% Contract. Highlights an 89% Physical, 3% Hybrid, and 8% Remote job distribution.

Bioinformatics Engineer

Axle

Rockville, MD • On-site

Full-time

Medical, Dental, Vision, Retirement, PTO

Re-posted 20 days ago

Job description

(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 seeking a skilled Bioinformatics Engineer to join our team supporting major pharmaceutical clients. In 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 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 

Required Qualifications 

  • 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) 

Preferred Qualifications 

  • 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 

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 Axle's 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: careers@axleinfo.com


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

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