Bioinformatics Scientist II

Compensation : $112,00 - $145,000 per year. You are eligible for a Short-Term Incentive with the target at 7.5% of your annual earnings; terms and conditions apply.

Bioinformatics Scientist II - Remote

The Bioinformatics Scientist II supports the clinical delivery of genomic data by monitoring, troubleshooting, and maintaining bioinformatics pipelines. This role develops internal dashboards and tools to streamline reporting workflows, performs ad-hoc analysis to resolve sample-level issues and operational gaps, and implements code and configuration fixes to ensure pipeline reliability. The role will require collaboration across engineering, clinical, and lab teams to ensure timely and accurate data processing in a high-throughput, regulated environment.

Essential Functions:

• Respond to software pipeline issues and troubleshoot underlying causes to restore operational continuity
• Resolve software, system, and data-related issues that impact sample processing and reporting timelines
• Maintain operational readiness of bioinformatics tools and systems critical to clinical workflows
• Implement fixes and enhancements to existing pipelines to improve robustness, scalability, and clinical reliability
• Monitor pipeline performance and implement optimizations
• Conduct ad-hoc data analysis to support operational decisions, performance improvements, or clinical investigations
• Collaborate with software engineering, clinical, and lab teams to ensure alignment between pipeline performance and clinical needs
• Document root causes, corrective actions, and procedural changes following operational incidents
• Automate routine diagnostic and support tasks to reduce manual effort and improve operational response time
• Provide weekend support on a rotating basis that is equally distributed across all operational personnel
• Other duties as assigned

Qualifications:

• Bachelor's degree in bioinformatics, computer science, or related discipline
• At least 3+ years of relevant industry experience
• Strong proficiency with Python programming and Linux environments
• Experience with Nextflow or similar workflow management systems
• Experience with Illumina sequencing data and bioinformatics NGS pipelines
• Knowledge of version control systems, particularly Git
• Demonstrated ability to solve problems independently
• Basic knowledge of SQL and experience working with relational databases
• Experience with bioinformatic data formats and processing methods
• Excellent communication skills to coordinate with cross-functional teams
• Ability to work effectively in a collaborative environment
• Experience with software testing methodologies
• Strong analytical and debugging skills
• Experience with clinical genomics or regulated environments
• Comfort with Jira, Confluence, or other ticketing/documentation tools
• Understanding of variant annotation tools, data formats, and clinical interpretation
• Knowledge of AWS cloud services and containerization
• Experience developing dashboards using tools such as Dash, Flask, Shiny, etc.

About Us:

Ambry Genetics Corporation is a CAP-accredited and CLIA-licensed molecular genetics laboratory based in Aliso Viejo, California. We are a genetics-based healthcare company that is dedicated to open scientific exchange so we can work together to understand and treat all human disease faster.

At Ambry, everyone is welcome. A career at Ambry Genetics is a chance to be part of a dynamic company that aims to improve health by understanding the relationships between genetics and human disease. We earned our reputation as industry leaders by responsibly introducing cutting-edge genetic testing solutions and continually sharing what we learn with the global scientific community.

At Ambry you will be learning, challenging yourself, and having fun while collaborating with teammates through the open exchange of ideas. Our outstanding benefits program includes 401k, medical, dental, vision, FSA, paid sick leave and generous paid time off (PTO) program. You can learn more about the benefits here . Ambry Genetics is an Equal Opportunity Employer (EOE) and we maintain a drug-free work environment.

The Company believes in second chance employment. Qualified applicants with arrest or conviction history will be considered regardless of their arrest or conviction history, consistent with local laws such as Los Angeles County Fair Chance Ordinance and the California Fair Chance Act. You do not need to disclose your criminal history or participate in a background check until a conditional job offer is made to you. After making a conditional offer and running a background check, if the Company is concerned about conviction that is directly related to the job, you will be given the chance to explain the circumstances surrounding the conviction, provide mitigating evidence, or challenge the accuracy of the background report. For the purpose of the above job description, “Essential Functions” are “Material Job Duties”.

Our salary ranges are determined by role, level, and location. The range displayed on each job posting reflects the minimum and maximum target for new hire salaries for the position across all US locations. Within the range, individual pay is determined by work location and additional factors, including job-related skills, experience, and relevant education or training.

All qualified applicants will receive consideration for employment without regard to race (and traits historically associated with race, including, but not limited to hair texture and protective hairstyles such as braids, locks, and twists), color, creed, religion, sex, sexual orientation, gender identity, gender expression (including transgender status), national origin, ancestry, age, marital status or protected veteran status and will not be discriminated against on the basis of disability, protected medical condition as defined by applicable state or local law, genetic information, or any other characteristic protected by applicable federal, state, or local laws and ordinances. If you have a disability or special need that requires accommodation, please contact us at ...

Ambry does not accept unsolicited resumes from individual recruiters, third party recruiting agencies, outside recruiters or firms without an executed contract in place. We are not responsible for any fees related to resumes that are unsolicited or are received by Ambry. Such resumes will be deemed the sole property of Ambry and will be processed accordingly.

PRIVACY NOTICES:

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