Rapidly Growing Life Sciences Technology Company  

Ultima Genomics is a rapidly growing company that is developing ground-breaking genomics technologies. Our mission is to continuously drive the scale of genomic information to enable unprecedented advances in biology and improvements in human health. We have developed a foundational new approach to sequencing at scale that overcomes limitations due to the high costs of current technologies. We are well-funded and have raised approximately $600 million from global top-tier investors. Our team brings together unique and diverse expertise across multiple disciplines, from healthcare and life sciences, to engineering, to technology and software and beyond. We are a collaborative group, including successful entrepreneurs, chemists, hardware and software engineers, genomics and biotechnology experts, molecular and computational biologists, software and algorithm experts, and operations and commercial leaders. Join us to develop and commercialize technologies that unleash the power of genomics at scale and empower the future of human health.  

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.

Compensation & Benefits

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.

#LI-Remote

Equal Opportunity Employment

Ultima Genomics is proud to be an equal opportunity workplace and is an affirmative action employer. We provide equal employment opportunity for all applicants and employees. We do not discriminate on the basis of race, color, religion, sex (including pregnancy, childbirth, or related medical conditions), gender identity, gender expression, national origin, ancestry, citizenship, age, physical or mental disability, military or veteran status, marital status, domestic partner status, sexual orientation, genetic information, or any other basis protected by applicable laws.  

See also Ultima Genomics’ EEO Policy and Know Your Rights. If you have a disability or special need that requires accommodation, please let us know by contacting recruiting@ultimagen.com.

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Clinical Genomics Scientist, Oncology – BillionToOne

Role Overview

‍BillionToOne is seeking a Clinical Genomics Scientist to support the Clinical Genomics team in day-to-day commercial reporting operations, specifically focusing on variant interpretation and report drafting. This is a part-time, remote-based contracting position (10–20 hours/week) requiring a commitment of at least one year.

‍Key Logistics

Position Type - Part-time Contracting

‍Commitment - 10–20 hours/week (Minimum 1-year engagement)

‍Location - Remote

‍Availability - Must be able to work Saturday and/or Sunday

Rate - $100/hour

Responsibilities

• Somatic Variant Interpretation: Perform somatic-based variant interpretation by reviewing literature and databases to classify variants and match treatments. Perform verifications using BAM file analysis.
• Clinical Report Drafting: Draft reports using an in-house reporting API, working in coordination with engineering, QA, and laboratory directors.
• Content Curation: Contribute to the curation of gene-level content, such as domain and critical residue curation.
• R&D Collaboration: Work with the R&D team on somatic oncology projects, providing expertise on biological pathways, mechanisms, and variant-level analyses.

Qualifications

• Education: Ph.D. in Human Genetics, M.S. in Genetic Counseling, or a related field.
• Experience: 2+ years of experience in somatic variant interpretation based on ACMG/AMP guidelines (or 1+ years of germline and 1+ years of somatic experience).
• Technical Skills: * Hands-on experience with mutation databases (COSMIC, ClinVar, OncoKB), annotation sources (dbSNP), and genome browsers (UCSC).
  • Familiarity with IGV and BAM file analysis.
  • Willingness to learn basic bioinformatics tools and apply technically-minded insights.
• Domain Knowledge: Understanding of cancer somatic mutations and signaling pathways (e.g., FDA-approved drugs, clinical trials, and "hot targets").
• Attributes: Exceptional attention to detail for following SOPs and strong organizational skills for managing reporting projects.

About BillionToOne

BillionToOne is a next-generation molecular diagnostics company on a mission to make accurate diagnostic tests accessible to everyone. Their revolutionary QCT molecular counting technology enhances disease detection resolution by over a thousandfold using cell-free DNA.

• Impact:
  • Unity Complete™: The only non-invasive prenatal screen capable of assessing fetal risk for both common recessive conditions and aneuploidies from a single sample.
  • Northstar®: A liquid biopsy test combining treatment selection with real-time monitoring for oncology.
• Growth: Scaled from $0 to over $150M in Annual Recurring Revenue in five years; completed a successful IPO in 2025.
• Recognition: Named one of America's Best Startup Employers for 2025 by Forbes and Great Place to Work certified.
• Future: Headquartered in Menlo Park, with facilities in Union City, CA, and a new lab opening in Austin, TX, in 2027.

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ABOUT PROFLUENT

Profluent is an AI-first protein design company. Founded in 2022, we develop deep generative models to design and validate novel, functional proteins to revolutionize biomedicine. Based in Emeryville, CA, we are backed by leading investors including Altimeter Capital, Bezos Expeditions, Spark Capital, Insight Partners, Air Street Capital, AIX Ventures, and Convergent Ventures, and have raised over $150M to date.

POSITION SUMMARY:

Our generative models learn the blueprint of life by modeling large-scale evolutionary data, enabling us to engineer and write biology in unprecedented ways. We are seeking a passionate Computational Research Intern to join moonshot projects at the intersection of bioinformatics and machine learning. This is a rare opportunity to tackle open-ended scientific and engineering challenges with direct potential for high-impact publications and real-world applications in synthetic biology and protein engineering.

RESPONSIBILITIES:

• Design and implement computational approaches to advance cutting-edge research in bioinformatics and machine learning.
• Analyze large-scale genomic and protein datasets to uncover new biological insights and capabilities.
• Collaborate closely with scientists and engineers across machine learning, protein engineering, and biology teams.
• Document and present research findings internally, with the potential to publish in leading journals and conferences.

QUALIFICATIONS:

• Enrolled in a BS, MS, or PhD program in Bioinformatics, Computational Biology, Computer Science, Statistics, or a related quantitative field.
• Strong programming skills in Python and familiarity with scientific computing libraries (e.g., NumPy, pandas, Jupyter).
• Experience in one or more of the following: machine learning, large-scale data analysis, genomics, or protein bioinformatics.
• Excellent problem-solving skills, scientific curiosity, and ability to work both independently and collaboratively.

INTERNSHIP DETAILS:

• Typical duration: 12 weeks, with flexible start dates.
• Hybrid: 2 - 3 days on-site per week in our Emeryville, CA headquarters.
• Salary: $1,667 per week.
• Opportunity to publish your work and make a lasting impact in computational biology and AI-driven protein design.

WHAT WE OFFER:

• Work on moonshot projects at the frontier of AI and biology.
• Mentorship from leading experts in bioinformatics, machine learning, and synthetic biology.
• A dynamic, mission-driven environment with the resources of a fast-growing, well-funded startup.
• Competitive internship compensation and benefits.

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