Ampersand Biomedicines · 1 day ago
Senior Scientist, AI Protein Design
Boston, MA
Full-time
Onsite
Mid, Senior Level
$168K/yr - $231K/yr
3+ years expAmpersand Biomedicines is a Flagship Pioneering company on a mission to transform patients’ lives with programmed medicines that work precisely where needed, and nowhere else. We are seeking a creative and motivated scientist with expertise in machine learning-driven antibody binder design to join our Computational Science team, where you will develop frameworks and models for antibody design and collaborate with biologists and computational biologists.
BiopharmaBiotechnologyMedicalTherapeutics
Responsibilities
Design and conduct independent machine learning research to promote antibody binder design
Deliver robust, production-quality models that will drive the next generation of antibody design, advancing both engineering and de novo
Collaborate closely with experimental teams to align with their capabilities, thereby enabling the creation of advanced hybrid platforms
Communicate insights and conclusions to colleagues in the scientific and leadership teams
Manage members of the Machine Learning team to drive advancements in our AND-Body platform
Develop a high-performing and ambitious team by providing mentorship, growth opportunities, and clear career development pathways for direct reports
Foster a culture of collaboration and accountability through strong cross-functional communication, ensuring alignment with key stakeholders and driving business success
Contribute to building a positive, team-oriented biotech culture
Qualification
Required
A PhD in biochemistry, biophysics, computational chemistry, computational biology, computer science, machine learning, or a related discipline solving biological or chemical problems using computational approaches
3+ years of industry experience in machine learning/deep learning, modeling, simulation, and design, particularly in sequence and structure-based protein design
Experience in leading and managing projects to ensure protein design relevant objectives are met on time and in high quality
Demonstrated experience with the state-of-the-art suite of tools for protein design and machine learning approaches (AlphaFold, ESM, ProteinMPNN, RF-Diffusion, Rosetta, etc)
Demonstrated experience in the Python programming language in addition to standard machine learning tools (PyTorch, TensorFlow, JAX, PyG, PyMC, etc)
Experience with developing novel AI, structure, or sequence-based methods for biomolecular design
Preferred
3+ years of industry experience that includes significant work in antibody binder AI/ML design
Strong communication skills, with the ability to translate complex computational findings into actionable insights within a collaborative group setting
Experience working in an interdisciplinary environment, effectively collaborating with bench scientists, with the ability to think independently and contribute to a dynamic intellectual environment
Proven track record of successfully managing projects with multiple team members, and monitoring project progress as well as proactively resolving any issues to ensure successful outcomes
Expertise with common software development tools and best practices: Git, AWS or other cloud experience, testing frameworks, etc
Ability to multi-task and prioritize in a fast-paced start-up setting
Benefits
Healthcare coverage
Annual incentive program
Retirement benefits
A broad range of other benefits
Company
Ampersand Biomedicines
Ampersand Biomedicines is a multi-product platform that develops programmable medicines that target disease sites precisely.
11-50 employees
H1B Sponsorship
Ampersand Biomedicines has a track record of offering H1B sponsorships. Please note that this does not
guarantee sponsorship for this specific role. Below presents additional info for your
reference. (Data Powered by US Department of Labor)
Distribution of Different Job Fields Receiving Sponsorship
Represents job field similar to this job
Trends of Total Sponsorships
2025 (3)
2024 (1)
2023 (1)
Funding
Current Stage
Growth StageTotal Funding
$115MKey Investors
Flagship Pioneering
2025-03-19Series B· $65M
2023-03-07Series Unknown· $50M
Leadership Team
Jason Gardner
CEO
Recent News
2025-05-04
2025-04-02
Google Patent
2025-04-02
Company data provided by crunchbase