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Bioinformatic Engineer Jobs (NOW HIRING)

Windber, PA

Bioinformatics Engineer

Windber, PA · On-site

Evaluate and implement new bioinformatic systems. * Evaluate and test both internal and external ... Keep up to date with advancements in bioinformatics and software engineering for the continuous ...

QIAGEN

Bioinformatics Engineer, QDI

Redwood City, CA · On-site

$130K - $150K/yr

As a Bioinformatics Engineer in the Content Development team, you will play a critical role in maintaining and extending QIAGEN's biomedical knowledge base by integrating new knowledge from public ...

Qiagen

Bioinformatics Engineer, QDI

Redwood City, CA · On-site

$130K - $150K/yr

As a Bioinformatics Engineer in the Content Development team, you will play a critical role in maintaining and extending QIAGEN's biomedical knowledge base by integrating new knowledge from public ...

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Bioinformatic Engineer information

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$33K

$89.2K

$142K

How much do bioinformatic engineer jobs pay per year?

As of Sep 11, 2026, the average yearly pay for bioinformatic engineer in the United States is $89,183.00, according to ZipRecruiter salary data. Most workers in this role earn between $66,500.00 and $109,000.00 per year, depending on experience, location, and employer.

What is a bioinformatic engineer?

Bioinformatic Engineers are professionals who develop and apply computational tools and techniques to analyze biological data, such as DNA sequences, protein structures, and genetic information. They combine expertise in computer science, biology, and mathematics to process large datasets generated by modern biological experiments. Their work supports research in areas like genomics, drug discovery, and personalized medicine by helping scientists make sense of complex biological data.

What skills and qualifications are needed to thrive as a bioinformatic engineer?

To thrive as a Bioinformatic Engineer, you need a strong background in computational biology, programming (such as Python or R), statistics, and a relevant degree in bioinformatics, computer science, or a related field. Familiarity with bioinformatics tools (like BLAST, GATK, or Bioconductor), data analysis platforms, and experience with databases such as SQL are typically required. Strong problem-solving abilities, attention to detail, and effective communication skills help you interpret complex data and collaborate with multidisciplinary teams. These skills are essential for accurately analyzing biological data, deriving meaningful insights, and facilitating research or clinical advancements.

What are common challenges faced by bioinformatic engineers when working with large-scale genomic data?

Bioinformatic Engineers often encounter challenges related to managing and processing vast amounts of genomic data, which can require significant computational resources and efficient data handling strategies. Ensuring data integrity, reproducibility of analyses, and effective collaboration with multidisciplinary teams of biologists, statisticians, and software developers are also key aspects of the role. Staying updated with the latest bioinformatics tools and pipelines is essential, as the field evolves rapidly. Overcoming these challenges requires strong problem-solving skills, attention to detail, and the ability to communicate complex findings to non-technical stakeholders.

What is the difference between Bioinformatic Engineer vs Bioinformatics Analyst?

AspectBioinformatic EngineerBioinformatics Analyst
Required CredentialsBachelor's or Master's in Bioinformatics, Computer Science, or related fieldsBachelor's or Master's in Bioinformatics, Biology, or related fields
Work EnvironmentResearch labs, biotech companies, healthcare institutionsResearch institutions, healthcare, pharmaceutical companies
Employer & Industry UsageDevelops tools, pipelines, and software for biological data analysisAnalyzes biological data, interprets results, and reports findings

While both roles involve biological data, Bioinformatic Engineers focus on developing computational tools and pipelines, whereas Bioinformatics Analysts primarily interpret data and generate insights. Both positions require similar educational backgrounds and are vital in research and healthcare settings, but their core responsibilities differ in development versus analysis.

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Cities with the most Bioinformatic Engineer job openings:

What states have the most Bioinformatic Engineer jobs?

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Bioinformatic Engineer jobs near you
Infographic showing various Bioinformatic Engineer job openings in the United States as of September 2026, with employment types broken down into 1% Internship, 87% Full Time, 9% Part Time, and 3% Contract. Highlights an 86% Physical, 4% Hybrid, and 10% Remote job distribution, with an average salary of $89,183 per year, or $42.9 per hour.

Lead Bioinformatics Engineer

Baltimore, MD • On-site

Quest Diagnostics
See more jobs at Quest Diagnosticsexternal

$130K/yr

Full-time

Medical, Dental, Vision, Life, Retirement, PTO

This job post has expired 3 days ago. Applications are no longer accepted.

ExamOne rating

6.6

Company rating: 6.6 out of 10

Based on 9 frontline employees who took The Breakroom Quiz

Job description


Pay Range: $130,000.00 - $160,000.00 / year
Salary offers are based on a wide range of factors including relevant skills, training, experience, education, and, where applicable, certifications obtained. Market and organizational factors are also considered. Successful candidates may be eligible to receive annual performance bonus compensation.
Benefits Information:
We are proud to offer best-in-class benefits and programs to support employees and their families in living healthy, happy lives. Our pay and benefit plans have been designed to promote employee health in all respects - physical, financial, and developmental. Depending on whether it is a part-time or full-time position, some of the benefits offered may include:
• Day 1 Medical, supplemental health, dental & vision for FT employees who work 30+ hours
• Best-in-class well-being programs
• Annual, no-cost health assessment program Blueprint for Wellness®
• healthyMINDS mental health program
• Vacation and Health/Flex Time
• 6 Holidays plus 1 "MyDay" off
• FinFit financial coaching and services
• 401(k) pre-tax and/or Roth IRA with company match up to 5% after 12 months of service
• Employee stock purchase plan
• Life and disability insurance, plus buy-up option
• Flexible Spending Accounts
• Annual incentive plans
• Matching gifts program
• Education assistance through MyQuest for Education
• Career advancement opportunities
• and so much more!
We are a leading oncology diagnostics company dedicated to advancing precision medicine through cutting edge ultra-sensitive genomic technologies. As we expand our portfolio of minimal residual disease (MRD) testing solutions, we are seeking a highly skilled and motivated Senior Bioinformatics Engineer to join our team. This role offers the opportunity to contribute to the development and implementation of bioinformatics methods that directly impact cancer patient care, enabling improved monitoring, and more informed treatment decisions.
The Senior Bioinformatics Pipeline Engineer will design, architect, optimize, and scale our clinical-grade Next-Generation Sequencing Bioinformatics workflows.
As a senior technical contributor, you will bridge the gap between assay development, assay validation, and clinical informatics systems. You will lead the implementation of automated computational workflows that process massive genomic datasets, ensuring the rapid, accurate, and secure delivery of diagnostic insights. Operating within a regulated clinical laboratory environment, you will champion modern software engineering practices, Infrastructure as Code (IaC), containerization, and advanced cloud orchestration to ensure high reproducibility, robust security, and absolute compliance with CAP, CLIA, NYSDOH, and FDA regulations.
This professional will work in a hybrid capacity out of one of the following offices:
Baltimore, MD
Secaucus, NJ
Marlborough, MA
Lewisville, TX
Responsibilities
  • Architect, implement, and maintain highly scalable genomic pipelines for processing high-throughput clinical NGS data (including Whole Genome, Whole Exome, Targeted Panels, RNA-Seq, Liquid Biopsy, and Somatic Variant Calling assays).
  • Develop, modularize, and optimize complex workflow code using Nextflow or Snakemake to orchestrate data processing from raw sequencer output to final clinical variant interpretation.
  • Design and implement containerization strategies (Docker, Singularity) to guarantee strict environment isolation, portability, and reproducibility across local HPC and cloud environments.
  • Lead the migration, deployment, and monitoring of pipelines on cloud platforms (AWS), utilizing services such as AWS Batch, ECS, S3, Step Functions, Lambda, and CloudWatch.
  • Drive the adoption of modern software development life cycle (SDLC) best practices, including Git branch strategies, continuous integration/continuous deployment (CI/CD) workflows, comprehensive automated unit/integration testing (pytest, linting), and structural code documentation.
  • Profile, benchmark, and optimize cloud compute resources to systematically reduce runtime, improve data throughput, and control operational cloud spend.
  • Collaborate closely with Molecular Pathologists, R&D Scientists, and Software Engineers to integrate genomic pipelines with Laboratory Information Management Systems (LIMS), local/cloud clinical databases (SQL/NoSQL), and electronic medical records via HL7/FHIR protocols.
  • Author and execute formal Software Validation Plans, Software Design Specifications, Test Cases, and Validation Summary Reports in accordance with Quest's internal Quality System and regulatory frameworks (CAP/CLIA, FDA, NYSDOH).
  • Establish automated regression testing frameworks, synthetic validation datasets, and benchmark controls to monitor pipeline precision, sensitivity, and clinical-grade accuracy.
  • Provide technical guidance, conduct rigorous peer code reviews, and mentor mid-level and junior bioinformatics engineers on the team.

Qualifications
Required Work Experience:
  • Python & Shell: Advanced proficiency in Python (including pandas, numpy, and testing libraries like pytest) and robust Bash/Shell scripting.
  • Workflow Management: Extensive hands-on experience designing and maintaining production-grade workflows using Nextflow (DSL2 preferred) or Snakemake in high-throughput environments.
  • Genomic Tools: Deep, working knowledge of NGS alignment, variant calling, and annotation suites (e.g., BWA, GATK, DeepVariant, Mutect2, VarDict, Ensembl VEP, SnpEff) and biological file formats (FASTQ, BAM, VCF, BED).
  • Cloud & DevOps: Demonstrated experience configuring and managing AWS cloud infrastructure (AWS Batch, EC2, S3, IAM, CloudWatch) using Infrastructure-as-Code (Terraform or CloudFormation).
  • CI/CD & Git: Strong expertise in git version control, collaboration (branching patterns, pull requests), and automation via GitHub Actions or Jenkins.
  • Containerization: Proficiency with Docker and Singularity, including multi-stage builds and optimization.

Preferred Work Experience:
  • Regulated Environments: 2+ years of experience working in a clinical genomics space adhering to CAP, CLIA, GxP, or FDA Title 21 CFR Part 11 requirements.
  • LIMS & Integration: Experience integrating pipeline outputs into clinical reporting engines, relational databases (PostgreSQL, MySQL), or NoSQL databases.
  • Databases: Working knowledge of clinical genomics databases (e.g., ClinVar, gnomAD, COSMIC, ClinGen).

Work Environment:
  • Hybrid work schedule

Travel required
Education
  • Required: Bachelor's in bioinformatics, Computational Biology, Computer Science, Software Engineering, or a closely related quantitative field with 7+ years of professional industry experience.
  • Preferred: Master's in bioinformatics, Computational Biology, Computer Science, Software Engineering, or a closely related quantitative field with 5+ years of professional industry experience with a strong track record of production-level pipeline development.

About the Team
Quest Diagnostics honors our service members and encourages veterans to apply.
While we appreciate and value our staffing partners, we do not accept unsolicited resumes from agencies. Quest will not be responsible for paying agency fees for any individual as to whom an agency has sent an unsolicited resume.
Equal Opportunity Employer: Race/Color/Sex/Sexual Orientation/Gender Identity/Religion/National Origin/Disability/Vets or any other legally protected status.

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