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Senior Principal Bioinformatics Scientist, Probe Development

Nautilus Biotechnology

Nautilus Biotechnology

San Diego, CA, USA
Posted on Wednesday, May 3, 2023
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 are hiring for a Sr.Principal Bioinformatics Scientist or Associate Director to lead our Probe Development and Qualification Bioinformatics Team. Being successful in our goal of delivering novel proteomic results to the world is dependent on our ability to perform targeted discovery and characterization of a large set of affinity reagents (probes) which, in turn, will provide differential information via their binding behaviors about the proteins and proteoforms under analysis on the Nautilus platform. This individual will work closely with experimentalists and scientists on the Probe Development and Qualification teams, as well as other senior bioinformatics leaders within the company, to guide our probe discovery approaches, advise the company on existing probe performance, and assist with the characterization efforts required to make these probes effective for all platform applications.
This position will report to the Senior Director of Bioinformatics and Software Engineering and is located inSan Carlos, CA, San Diego, CA, or Seattle, WA.


  • Lead the bioinformatics team responsible for supporting all our probe development and qualification efforts, including determining research priorities and approaches for the team.
  • Contribute to company-wide strategic planning by leveraging existing data and assumptions grounded in biology to forecast and predict outcomes in hypothetical scenarios.
  • Assist wet-lab scientists with experimental design, data analysis, and interpretation of results in the domains of bioassay development, selection of antibodies and other affinity reagents, and evaluation of binding kinetics.
  • Implement custom machine learning approaches to improve throughput and success rate of the overall probe development pipeline.
  • Develop and apply statistical learning approaches to generate clear, actionable statements and visuals from biologically relevant data sets.
  • Serve as the technical representative for the Probe Bioinformatics team company wide.
  • Maintain existing and establish new external collaborations.


  • A PhD degree in Bioinformatics, Computational Biology, or similar field is required.
  • 8-10 years of experience in developing and applying bioinformatic analyses in the fields of proteomics, genomics, or transcriptomics in high performing research organization(s) is required.
  • 4 or more years of experience in a bioinformatics leadership role is required.
  • You have an excellent track record of leading complex bioinformatics projects throughout all stages, from inception to results publication.
  • You have a proven ability to guide experimental design, model biological processes in-silico, and generate inferences from data using customized modeling approaches.
  • You are comfortable with applying statistical analysis and visualization approaches to surface insights within raw, not-yet-cleaned biological data, and have built automated end-to-end data processing pipelines that deliver actionable conclusions to scientists.
  • You are fluent in a variety of programming languages, frameworks, and tools – we are currently heavily invested in Python.
  • You have strong organization and communication skills, and the ability to lead others both directly and through collaboration.
  • You optionally have expertise in deep learning, especially for the application of deep learning techniques to the field of proteomics.
  • You have fun when building complex systems while working side-by-side with experts from a variety of disciplines.

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 while continuously pushing ourselves forward
  • We are detail oriented: we do great science by working smart and with diligence, and by learning from our 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