Join to apply for the Bioinformatics Engineer I/II role at ClearNote Health Join to apply for the Bioinformatics Engineer I/II role at ClearNote Health Get AI-powered advice on this job and more exclusive features. Job Title: Bioinformatics Engineer I/II FLSA: Exempt Location: San Mateo (Preferred) , San Diego or Remote

Description ClearNote Health is seeking a motivated and detail-oriented Bioinformatics Engineer to join our team. In this role, you will support internal research initiatives and help drive successful external collaborations through the development, maintenance, and execution of bioinformatics workflows. You will work closely with other research and development personnel in the Company to understand scientific requirements and to identify bioinformatics solutions. You will incorporate a range of existing and custom software to develop robust, scalable, and reproducible bioinformatic workflows in a timely manner. The ideal candidate should have a strong working knowledge of bioinformatics tools and pipelines, excellent organization skills, and good understanding of software engineering best-practices.

Responsibilities Develop and maintain cloud-based bioinformatics pipelines for next-generation sequencing (NGS) data in support of the research & development team Collaborate with the R&D team to identify and evaluate bioinformatics tools Collaborate with the R&D team to develop new machine learning features suitable for machine learning models trained to detect cancer and monitor treatment response Document requirements including expected input and output data types and example use cases Develop unit tests to ensure reproducible workflows Track development plans and progress of sprints Work with the rest of the engineering team to transition computational pipelines in the research environment to use in the clinical environment Survey current industry practices to identify opportunities for improving our code base Assist with servicing of customers, including the timely execution of in-house data processing and analysis pipelines and the transfer of these data to customers

Requirements Experience with developing scientific workflow system (e.g. Nextflow, Snakemake) for bioinformatics analysis Familiarity with best practices in software engineering and strong organizational skills Proficiency in Unix, SQL, Python and R Experience with working in a cloud computing environment (e.g. AWS, Azure) Working knowledge of molecular biology concepts and the principles of genomics technology Team player with excellent communication skills Ability to meet deadlines Attentive to detail with the ability to independently investigate/troubleshoot complex computational workflows Strong knowledge of file formats and tools commonly used in NGS bioinformatics workflows such as fastq, BAM, vcf, bed, bedtools, reference genome, annotations, bwa, WGS, samtools, Familiarity with containerization technology (e.g. Docker, Singularity) Familiarity with Git and best practices in software version control

Preferred Exposure to JIRA Experience creating visualizations for bioinformatics analysis Experience with differential gene expression analysis

What We Value At ClearNote Health, we are driven by our mission and guided by our values: Put Patients First -Focused on serving patients and their support system, wedirect all our efforts toward the area of greatest impact by discovering and building with speed, excellence, and purpose. Redefine the Possible -We are daring, imaginative, and focused in our pursuit of the next big idea. We take calculated risks to grow our business and improve patients’ lives. Together We Win -We encourage and challenge each other to achieve the greatest positive impact on those we serve: our customers, patients, colleagues, and stakeholders. Compensation Compensation is based on skills, experience, and qualifications. The estimated base salary range for this position is $121,667 - $187,833.with potential variation based on depth of experience and location. This role includes stock options and generous benefits. Why ClearNote Health ClearNote Health is a pioneering life sciences company applying next-generation epigenomic technologies to transform cancer diagnostics. Our tests are used by the National Cancer Institute and physicians around the world to detect cancer early, when it is most treatable. Founded on research from the Stanford lab of Dr. Stephen Quake and guided by world-class advisors, we are building products that provide actionable insights into human health and disease. With a passionate, experienced team and multiple commercially available tests, we are poised to make a lasting impact in precision medicine. We are based in San Diego, CA and San Mateo, CA and backed by leading investors. Join us in redefining what’s possible in early cancer detection. Our Commitment to Diversity, Equity, Inclusion, and Belonging We believe that innovation thrives in a culture of diverse perspectives and inclusive collaboration. We are committed to building a team that reflects the patients we serve and the world we want to live in. We celebrate individuality, equity, and integrity as foundational to our mission and success. Seniority level Seniority level Entry level Employment type Employment type Full-time Job function Job function Sales, General Business, and Education Industries Wireless Services, Telecommunications, and Communications Equipment Manufacturing Referrals increase your chances of interviewing at ClearNote Health by 2x Get notified about new Bioinformatics Engineer jobs in San Mateo, CA . Bioinformatics Software Engineer, AI Applications - Keplogic Redwood City, CA $85,000.00-$145,000.00 1 week ago Research Engineer - Machine Learning (ML) Palo Alto, CA $180,000.00-$440,000.00 3 weeks ago San Francisco, CA $170,000.00-$250,000.00 17 hours ago Machine Learning Engineer (I, II, or Sr.) Santa Clara, CA $148,909.00-$252,000.00 5 months ago Palo Alto, CA $180,000.00-$440,000.00 2 weeks ago San Francisco, CA $136,125.00-$226,875.00 6 hours ago Emeryville, CA $150,000.00-$200,000.00 1 month ago Machine Learning Engineer (I, II, or Sr.) Bioinformatics Engineer, Biomedical Knowledge Base Redwood City, CA $130,000.00-$170,000.00 6 days ago San Francisco, CA $150,000.00-$250,000.00 1 month ago Machine Learning Research Engineer (1 Year Fixed Term) San Mateo, CA $120,000.00-$135,000.00 1 week ago San Francisco, CA $115,000.00-$185,000.00 2 weeks ago Computer Vision and Deep Learning Engineer Mountain View, CA $150,000.00-$250,000.00 2 weeks ago Machine Learning Engineer, Computer Vision San Francisco, CA $150,450.00-$241,500.00 2 days ago We’re unlocking community knowledge in a new way. Experts add insights directly into each article, started with the help of AI.

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