Senior/Staff ML Bioinformatics Scientist

Protillion; Carlsbad (CA); On-site; USD 150,000 - 200,000; Full time

Benefits offered by this job

Competitive salary and benefits

Professional development opportunities

Collaborative work environment

Job summary

Protillion is looking for a highly motivated computational scientist in Carlsbad, CA. You will drive projects using Bayesian optimization and machine learning to advance biotechnological developments.

The ideal candidate has a PhD and 5+ years in the field, with expertise in Python programming and bioinformatics solutions. Competitive salary and a collaborative environment are offered.

Qualifications

• 5+ years of industry or postdoctoral experience.
• Experience designing and applying large language models in biology.
• Deep knowledge of sequencing technologies and analysis methodologies.

Responsibilities

• Develop scalable bioinformatics solutions for complex biological questions.
• Implement iterative learning cycles between bioinformatics and experimental workflows.
• Analyze sequencing data from various platforms for insights.

Skills

Python programming

Bioinformatics pipelines

Bayesian optimization

Active learning

Machine learning frameworks

Collaboration skills

Education

PhD in Computational Biology, Bioinformatics, Biophysics, or Computer Science

Tools

Docker

AWS

TensorFlow

PyTorch

Job description

About Us

Join our dynamic and innovative team at Protillion Biosciences, where we are pioneering a revolutionary high-throughput system for therapeutic development. We are dedicated to transforming the landscape of drug discovery with cutting-edge technology and a collaborative work environment.

About the Role

We are seeking a highly motivated and experienced computational scientist to join our dynamic team in Carlsbad, CA. The successful candidate will lead innovative projects leveraging Bayesian optimization and active machine learning at the intersection of protein design, high-throughput experimentation, and experimental data analysis, contributing to groundbreaking advancements in biotechnology. This role requires a unique combination of technical expertise, strategic thinking, and collaboration with multidisciplinary teams.

Job Responsibilities

• Develop and deploy scalable bioinformatics solutions to address complex biological questions


• Implement and drive iterative learning cycles between computational bioinformatics and experimental workflows, such as active learning and Bayesian optimization


• Design and train multi-objective therapeutic protein design and optimization models using large language models (LLMs) and multi-scale modeling, leveraging our unique capabilities to generate quantitative protein–protein interaction measurements at unprecedented scale


• Collaborate closely with experimental scientists to refine models and validate predictions through laboratory experiments


• Analyze sequencing data from a variety of platforms, including Illumina, Oxford Nanopore, and PacBio, to extract meaningful insights


• Champion a high-quality, scalable code base by adhering to best practices in software development, including unit testing and continuous integration/continuous deployment (CI/CD)


• Mentor junior scientists and contribute to fostering a culture of innovation and excellence within the team

Requirements

• PhD in Computational Biology, Bioinformatics, Biophysics, Computer Science, or a related field with at least 5 years of relevant industry or postdoctoral experience


• Proven expertise in Python programming, with a strong track record of developing scalable and efficient bioinformatics pipelines


• Demonstrated experience in designing, training, and applying large language models to solve biological challenges, particularly in protein design


• Familiarity with active learning, reinforcement learning, Bayesian optimization, or other iterative learning paradigms in scientific contexts


• Deep knowledge of sequencing technologies (Illumina, Oxford Nanopore, PacBio) and analysis methodologies


• Exceptional problem-solving skills and the ability to translate complex biological problems into computational solutions


• Excellent communication and collaboration skills, with a proven ability to work effectively within interdisciplinary teams

Preferred Qualifications

• Experience with cloud computing platforms (AWS, GCP, or Azure) and containerization technologies (Docker, Apptainer)


• Proficiency in machine learning frameworks such as TensorFlow or PyTorch


• Knowledge of structural bioinformatics and protein modeling tools


• Familiarity with laboratory techniques and experimental validation processes

What We Offer

• Competitive salary and benefits package


• Opportunity to work on groundbreaking technology and novel therapeutics


• Collaborative and inclusive work environment


• Professional development and growth opportunities.

Protillion is an equal opportunity employer. We celebrate diversity and are committed to creating an inclusive environment for all employees.

Compensation Range: $150,000/yr - $200,000/yr