Staff Bioinformatics Scientist, Oncology Applications

We are looking for a highly motivated Staff Bioinformatics Scientist to join our Oncology Applications team!

As a Staff Bioinformatics Scientist, you will develop and apply computational methods for analyzing next-generation sequencing (NGS) data generated on Ultima’s platform. This role will involve building robust pipelines, developing novel algorithms, collaborating cross-functionally with molecular biology, software engineering, and product teams, and driving insights from complex genomic datasets, with a focus on growing Oncology Applications.

This position is ideal for someone who thrives in a dynamic, fast-paced environment and can effectively balance multiple high-impact projects. In addition to core R&D responsibilities, you will contribute to external-facing scientific communications and support collaborations with customers and partners.

This is a full time remote position with preferred locations in San Francisco, Boston, and Washington D.C.

How You’ll Contribute

• Develop, optimize, and maintain scalable bioinformatics pipelines for NGS data analysis such as WGS, WES, RNA-seq, and single-cell
• Design and implement novel algorithms for secondary and tertiary NGS analysis tailored to Ultima’s sequencing chemistry
• Lead and execute multiple projects simultaneously, effectively prioritizing deliverables in alignment with evolving company goals
• Perform benchmarking and validation studies
• Analyze large-scale genomic datasets and generate actionable insights for internal R&D, product development, and external collaborators
• Collaborate closely with wet-lab scientists, software engineers, and product teams to translate experimental results into improved workflows and tools
• Support external collaborations by preparing technical analyses, reports, presentations, and data summaries for customers, partners, and conferences
• Contribute to scientific publications, application notes, white papers, and other external communication materials as needed
• Participate in customer-facing discussions to explain data analysis approaches, performance metrics, and platform capabilities
• Document methods clearly and communicate findings effectively to both technical and non-technical audiences
• Stay current with emerging technologies and advances in genomics, computational biology, machine learning, and cancer biology
• Other duties as assigned

Qualifications, Skills, Knowledge & Abilities

• PhD in Bioinformatics, Computational Biology, Genomics, Computer Science, or related field; or MS with significant industry experience
• PhD with 5+ years or MS with 8+ years of hands-on experience analyzing NGS data required
• Strong programming skills in Python and/or C++
• Experience with common bioinformatics and somatic variant calling tools such as BWA, minimap2, GATK, samtools
• Proficiency in Linux/Unix environments and workflow management systems (Nextflow, Snakemake, WDL)
• Experience working with large datasets in cloud environments (AWS, GCP)
• Solid understanding of genomics and cancer biology
• Strong statistical and data analysis skills
• Demonstrated ability to manage multiple concurrent priorities and deliver high-quality work under tight timelines
• Knowledge of machine learning approaches applied to genomics
• Clear and confident communicator, comfortable in external-facing settings
• Experience in regulated environments (CLIA, CAP) is a plus
• Thrive in a fast-paced, startup environment with evolving priorities
• Demonstrated scientific rigor and analytical thinking
• High ownership, accountability, and bias toward action
• Collaborative mindset with cross-functional agility

At Ultima Genomics, your base pay is one part of your total compensation package. This role pays between $135,000 and $170,000, if performed in California, and your actual base pay will depend on your skills, qualifications, experience, and location. Please note that the compensation details listed in US role postings reflect the base salary only, and do not include bonus, equity, or benefits. This role is also eligible for a competitive benefits package that includes: medical, dental, vision, life, and disability insurance; 401(k) retirement plan; flexible spending & health savings account; paid holidays; paid time off; employee assistance program; and other company benefits.

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