Senior/Staff Machine Learning Bioinformatics Scientist

Senior/Staff Machine Learning Bioinformatics Scientist

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.

Job Description:
We are seeking a highly motivated and experienced computational scientist to join our dynamic team in San Diego. The successful candidate will lead innovative projects at the intersection of machine learning, protein design, 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.

Key Responsibilities:

Develop and deploy scalable bioinformatics solutions to address complex biological questions.
Design and train large language models (LLMs) for protein design and optimization, leveraging our unique capabilities to generate quantitative protein-protein interaction measurements at unprecedented scale.
Implement and drive iterative learning cycles between computational bioinformatics and experimental workflows, such as active learning or reinforcement learning approaches.
Analyze sequencing data from a variety of platforms, including Illumina, Oxford Nanopore, and PacBio, to extract meaningful insights.
Build scalable and quality controlled analytical pipelines for experimental data processing and cleaning. 
Collaborate closely with experimental scientists to refine models and validate predictions through laboratory experiments.
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.

Required Skills and Qualifications:

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, 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).
Experience building scalable bioinformatics pipelines from NGS data.
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