Bioinformatics Analyst III

Theiagen is seeking a Bioinformatics Analyst III to serve as a senior scientific and operational leader within our Public Health Team, reporting to the Public Health Team Lead. This role will independently lead complex and high-impact initiatives, serve as a primary owner for select partner engagements and projects, provide scientific oversight and mentorship across teams, and support the continued growth and scalability of Theiagen’s pathogen genomics services and operations., Technical & Scientific Leadership

• Serve as a pathogen genomics subject matter expert for public health and other applications.
• Provide scientific oversight and sign-off authority for analyses, reports, presentations, and partner deliverables.
• Guide interpretation of complex or non-routine analytical results.
• Ensure scientific rigor, reproducibility, and alignment with partner needs.
• Support development and evaluation of analytical methods, workflows, and tools.

Initiative Ownership & Execution

• Independently lead novel, ambiguous, or high-complexity projects from initiation through delivery.
• Serve as primary owner for partner engagements and specialized initiatives.
• Coordinate across analysts, developers, project managers, and stakeholders to drive execution.
• Develop implementation strategies, design documentation, and operational approaches for new project types.
• Act as escalation point for non-routine analytical and operational challenges.

Partner & Stakeholder Engagement

• Lead partner-facing meetings and communications independently.
• Build trusted relationships with public health and external partners.
• Identify partner needs and translate them into actionable analytical and technical solutions.
• Present findings, recommendations, and project updates to technical and non-technical audiences.
• Support strategic discussions regarding project direction and delivery.

Communication & Strategic Alignment

• Support Team Leads in alignment of analytical work with organizational priorities and operational strategy.
• Support Team Leads in scaling operations and distributing leadership responsibilities.
• Contribute to planning discussions regarding current and future services, and idea development for services expansion/improvement.
• Collaborate across teams to improve consistency, coordination, and delivery quality.
• Communicate technical concepts clearly across interdisciplinary teams.

Process Improvement & Technical Mentorship

• Mentor Analyst I and II staff through onboarding, troubleshooting, and professional development.
• Lead training initiatives and contribute to development of best practices and SOPs.
• Identify opportunities for workflow optimization, automation, and operational efficiency.
• Support knowledge-sharing and development of internal technical standards.
• Foster technical excellence and collaborative problem solving across teams.

Product Management & Design

• Define and translate product vision, roadmap, and priorities into actionable initiatives and continuously optimize direction based on user feedback, performance metrics, and organizational goals.
• Define and validate product acceptance criteria, ensuring deliverables meet functional and quality standards while monitoring product performance and user experience to drive continuous improvement.
• Serve as the primary liaison between stakeholders and the development team, ensuring clear communication of requirements, and supporting the team to successfully deliver sprint goals.
• Support refinement and prioritization of the product backlog by defining clear requirements, user stories, and acceptance criteria; collaborate with cross-functional stakeholders to incorporate customer and business feedback; and communicate product priorities, timelines, and risks to ensure delivery aligns with business value.

• Masters or doctoral degree in bioinformatics, biostatistics, computer science, microbiology, molecular biology, or related field.
• 7+ years of experience in bioinformatics analysis, with expertise in NGS and multi-omics data.
• Experience in programming languages such as SQL/Python/R.
• Experience with bioinformatics tools, databases, and workflow management systems (Nextflow, Snakemake, WDL).
• Demonstrated expertise applying bioinformatics tools and workflows to answer complex biological questions, particularly in pathogen genomics.
• Advanced proficiency in using bioinformatics tools for tasks such as genome assembly, annotation, taxonomic classification, and antimicrobial resistance detection.
• Proficiency with genomic epidemiology methods, including phylogenetics, outbreak investigation tools, and MLST typing.
• Proven ability to lead and manage multiple projects independently or within a collaborative team environment.
• Excellent written and verbal communication, with experience presenting technical results to diverse audiences.
• Effective judgment and advanced problem-solving skills with minimal supervision.
• Strong motivation and demonstrated impact in public health initiatives.

Preferred Skills:

• Comprehensive knowledge of public health laboratory processes and workflows, including validation and verification of bioinformatics workflows for decision-making.
• Expertise in interpreting bioinformatics results and providing actionable public health insights.
• Significant experience analyzing pathogen genomics datasets for public health applications (e.g., SARS-CoV-2, Mycobacterium tuberculosis, antimicrobial resistance, or HAIs).
• Advanced experience with cloud-based bioinformatics platforms (e.g., Terra.bio, Galaxy) and workflow orchestration tools (e.g., Nextflow, WDL, or Snakemake).
• Hands-on expertise in using visualization and reporting tools to clearly communicate results to stakeholders.
• Proficiency in shell scripting and working in UNIX/Linux environments.
• Experience mentoring junior team members and fostering technical excellence.

• Paid Time Off
• Fully remote work (Must hold citizenship for where you plan to work from, role does not offer sponsorship)
• Company supplied computer
• Medical, Dental, Vision coverage/stipend
• 401(k) with company match
• Flexible Spending Accounts
• Employee Assistance Program
• Employee Discount Program

Why Join Theiagen Genomics?

• Be part of a passionate team driving innovation in the pathogen genomics space.
• Competitive salary, comprehensive benefits, and opportunities for professional development.
• A culture that values diversity, collaboration, and a commitment to excellence.