Senior Scientist, Protein Design

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• Data Analytics & Computational Sciences

• Data Science

• Scientific/Technology

• Cambridge, Massachusetts, United States of America
• Spring House, Pennsylvania, United States of America

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Johnson & Johnson Innovative Medicine is currently seeking a Senior Scientist, Protein Design to join our In Silico Proteins team within the Therapeutics Discovery organization, with a preference for this individual to be located at one of our sites in Spring House, PA, or Cambridge, MA. Remote work options may be considered on a case-by-case basis.

This role presents an exciting opportunity to spearhead our molecular design and simulation initiatives, supporting and accelerating our drug discovery and development pipeline of protein-based therapeutics while collaborating with a passionate team of scientists and engineers. Your work will be pivotal in building, evaluating, refining, and applying sophisticated computational approaches and infrastructures. Your efforts will drive the discovery of complex molecules and expedite the development of protein therapeutics across various modalities and indications.

• Work directly with wet-lab scientists and therapeutic areas to design and optimize protein molecules for specific functions and properties, with a focus on antibody therapeutics.
• Collaborate with team members across Therapeutics Discovery on the planning, prioritization, and timely delivery of designs to support multiple concurrent programs
• Serve as an In Silico Discovery Lead on diverse project teams
• Work with ML colleagues to guide development, benchmarking, and application of pioneering generative and discriminative models.
• Model sophisticated biological systems using a variety of methods and tools to advise design methodology.
• Participate in internal and external presentations, peer-reviewed manuscripts and conference proceedings

• PhD in Biomedical Engineering, Biochemistry, Computational Biology, Computer Science, Structural Biology, Biophysics, Material Science, or other related quantitative field required.

• Advanced experience in computational protein modeling, design, structural biology, and biophysics is required
• Ability to lead projects in cross-functional teams to completion in a collaborative manner is required
• Experience in de novo protein design and sophisticated protein design techniques, such as large scale backbone editing is preferred.
• Experience with antibody and/or nanobody modeling and design is required.
• Experience with high performance computing (on-prem or cloud) is required
• Knowledge of critical wet-lab techniques used in protein engineering such as yeast display, SPR, ITC, CD-spectroscopy is preferred.
• Solid understanding of current machine learning architectures is required.
• Advanced proficiency in Python and related data-science packages such as Pandas and Numpy is required.
• Excellent communication, reporting and team interaction skills is required. Ideal candidate is self-motivated, proactive, and independent.
• Experience using Schrodinger, Discovery Studio, MOE, GROMACS, NAMD or other molecular dynamics simulation software is preferred
• Experience with powerful ML and biophysics packages for protein modeling and design such as Alpha Fold, Boltz2 , ESMFold, Immune Builder, Protein
  
  MPNN, RF Diffusion, RF Antibody, Boltzgen, Germinal, Chai-2, Chroma, Rosetta, etc is required.
• Experience with retraining, fine-tuning, and building ML models such as LLMs to support advanced protein design and protein property prediction tools is preferred.
• Experience mentoring and leading junior scientists is strongly preferred.
• Desire for continuous learning and the ability to identify, evaluate and deploy emerging algorithms, models, and protein design workflows is required

The preference is for this individual to be located at one of our sites in either Spring House, PA, or Cambridge, MA. Remote work options within the US may be considered on a case-by-case basis and if approved by the company. Travel up to 10% may be required.

Johnson &…