Senior Software Engineer

At Nautilus, we have a big and important mission : improve the health of millions by unleashing the potential of the proteome to accelerate drug development and enable a new world of precision and personalized medicine. We are developing a single-molecule protein analysis platform of unprecedented sensitivity, scale, and ease of use that we believe will democratize access to the proteome – one of the most dynamic and valuable sources of biological insight. To accomplish this, we are pursuing hard scientific problems with an entrepreneurial mindset and creating a world-class team of builders, innovators, and dreamers across a wide range of disciplines.

We’re hiring a Senior Software Engineer to design, build, and drive adoption of systems that power critical scientific data analysis at Nautilus Biotechnology. In this role, you’ll develop tools that not only generate essential outputs for experimentalists but also provide the quality metrics that build trust in our data. You’ll create systems that surface key scientific insights by integrating Nautilus datasets with internal and external sources. Additionally, you’ll help strengthen our data engineering foundations to accelerate the development of research tools that support our internal R&D. This is a high-impact role with the opportunity to shape our technology and directly influence the future of the company.

This position will report to the Associate Director of Software Engineering and can be located in Seattle, WA or San Carlos, CA (preferred). The position is hybrid and requires a minimum of three days onsite.

Responsibilities :

Build tools and pipelines that power the transformation of raw scientific data into usable metrics and insights.

Work cross-functionally with scientific and bioinformatic teams – as well as other software teams – to define quality control metrics and thresholds, and build the systems that compute and act upon those metrics.

Maintain comprehensive documentation for algorithms, data engineering processes, and code to facilitate knowledge sharing and future research.

Remain current on new technologies and available vendor packages; evaluate them and make recommendations as necessary.

Requirements :

A minimum of 6-10 years of relevant experience in a high performing software engineering organization(s) is required.

Bachelor’s degree in Computer Science or related field is required.

Proficiency in Python is preferred.

Fluency in a wide array of programming concepts, languages, and tools.

Experience with data storage and processing technologies like SQL, NoSQL, Hadoop, Spark, and cloud-based solutions (e.g., AWS, Azure, or GCP).

Excellent problem-solving skills and the ability to collaborate effectively in a multidisciplinary environment.

Strong communication skills and the ability to translate technical concepts for non-technical stakeholders.

Enthusiasm for science and a strong commitment to advancing scientific research through software engineering.

Proven experience in developing algorithms and data engineering solutions in the biotech or proteomics space preferred.

Nautilus Team Culture

We are curious go-getters : this is a team of life-long learners who aren’t afraid to tackle the big challenges and we embrace the journey

We are detail-oriented : we do great science by working smart & with diligence where we learn from our trials and mistakes

We are easy to work with : we want our workplace to be one where everyone can share their perspective and be treated with respect and kindness