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Protein Design Jobs in Reading, MA (NOW HIRING)

Manifold Bio

AI/ML Research Engineer

Boston, MA · On-site

Manifold Bio is a platform biotechnology company pioneering AI-guided protein design and massively multiplexed in vivo screening. They are seeking a talented AI/ML Research Engineer to implement ...

Manifold Bio

AI/ML Research Engineer

Boston, MA · On-site

Manifold Bio is a platform biotechnology company pioneering AI-guided protein design and massively multiplexed in vivo screening to unlock tissue-targeted medicines. They are seeking a talented ...

Manifold Bio

AI/ML Research Engineer

Boston, MA · On-site

Manifold Bio is a platform biotechnology company pioneering AI-guided protein design and massively multiplexed in vivo screening. They are seeking a talented Machine Learning Research Engineer to ...

Manifold Bio

AI/ML Research Engineer

Boston, MA · On-site

Manifold Bio is a platform biotechnology company pioneering AI-guided protein design and massively multiplexed in vivo screening to unlock tissue-targeted medicines. They are seeking a talented ...

Manifold Bio

AI/ML Research Engineer

Boston, MA · On-site

$140K - $225K/yr

Manifold Bio is a platform biotechnology company pioneering AI-guided protein design and massively multiplexed in vivo screening to unlock tissue-targeted medicines and organism-scale models of ...

Manifold Bio

Scientist, cDNA Display

Boston, MA · On-site

$118K - $138K/yr

Manifold Bio is a platform biotechnology company pioneering AI-guided protein design and massively multiplexed in vivo screening to unlock tissue-targeted medicines and organism-scale models of ...

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Showing results 21-40

All JobsProtein Design JobsProtein Design Jobs in Reading, MA

Protein Design information

See Reading, MA salary details

$44.3K

$120.8K

$212.6K

How much do protein design jobs pay per year?

As of Aug 10, 2026, the average yearly pay for protein design in Reading, MA is $120,810.00, according to ZipRecruiter salary data. Most workers in this role earn between $88,100.00 and $151,900.00 per year, depending on experience, location, and employer.

What is the difference between Protein Design vs Protein Engineering?

AspectProtein DesignProtein Engineering
Required CredentialsBiochemistry, Molecular Biology, BioinformaticsBiochemistry, Molecular Biology, Bioinformatics
Work EnvironmentResearch labs, biotech companies, academiaResearch labs, biotech companies, academia
Industry UsageDesigning novel proteins, drug development, synthetic biologyModifying existing proteins for improved function or stability

Protein Design focuses on creating new proteins with specific functions, often using computational methods. Protein Engineering involves modifying existing proteins to enhance or alter their properties. Both roles require similar skills and are used in research, biotech, and pharmaceutical industries, but their goals differ: one designs from scratch, the other optimizes existing proteins.

What are some typical challenges faced by professionals in protein design, and how are they addressed within a team setting?

Professionals in protein design often encounter challenges such as predicting accurate protein folding, ensuring stability, and achieving desired biological activity. These complexities are typically addressed through close collaboration with computational biologists, structural biologists, and experimental scientists. Teams frequently hold cross-functional meetings to troubleshoot issues, share findings, and iterate on design strategies based on laboratory results. This collaborative environment helps leverage diverse expertise and accelerates the development of novel proteins with desired functions.

What are the key skills and qualifications needed to thrive as a protein design scientist, and why are they important?

To thrive as a Protein Design Scientist, you need a strong background in molecular biology, biochemistry, and computational modeling, typically supported by an advanced degree in a relevant field. Proficiency with tools such as Rosetta, PyMOL, and molecular dynamics simulation software, as well as experience with protein expression and purification techniques, is essential. Analytical thinking, problem-solving, and effective communication are important soft skills to drive innovation and collaborate with interdisciplinary teams. These skills are crucial for designing functional proteins, troubleshooting experiments, and advancing research goals in biotechnology and pharmaceutical development.

What is protein design?

Protein design is the process of creating new proteins or modifying existing ones to have specific functions or properties. This can involve using computational tools, laboratory techniques, or a combination of both to predict and engineer amino acid sequences that will fold into desired three-dimensional structures. Protein design is used in various fields, including medicine, biotechnology, and research, to develop novel enzymes, therapeutics, or materials. The field requires a strong understanding of biology, chemistry, and computer science to achieve successful outcomes.
What job categories do people searching Protein Design jobs in Reading, MA look for? The top searched job categories for Protein Design jobs in Reading, MA are:
What cities near Reading, MA are hiring for Protein Design jobs? Cities near Reading, MA with the most Protein Design job openings:
Protein Design jobs near you
Infographic showing various Protein Design job openings in Reading, MA as of August 2026, with employment types broken down into 1% Internship, 84% Full Time, 11% Part Time, and 4% Contract. Highlights an 85% Physical, 4% Hybrid, and 11% Remote job distribution, with an average salary of $120,810 per year, or $58.1 per hour.

AI/ML Research Engineer

Manifold Bio

Boston, MA • On-site

Full-time

Re-posted 18 days ago

Job description

Job Summary:
Manifold Bio is a platform biotechnology company pioneering AI-guided protein design and massively multiplexed in vivo screening. They are seeking a talented AI/ML Research Engineer to implement, scale, and optimize machine learning systems that enhance their protein design capabilities, contributing to the development of production-ready ML infrastructure for breakthroughs in protein therapeutics.
Responsibilities:
• Implement and optimize machine learning models for protein design
• Build and maintain scalable data processing pipelines for large-scale protein and molecular datasets
• Develop and deploy ML infrastructure for distributed training and inference across GPU clusters
• Collaborate with research scientists to translate experimental ML approaches into production-ready code
• Design and execute ML experiments with clear hypotheses and rigorous analysis
• Optimize model performance and computational efficiency for large-scale protein design tasks
• Build tools and utilities to support rapid prototyping and experimentation by the research team
Qualifications:
Required:
• Bachelor's or Master's degree in Computer Science, Machine Learning, Computational Biology, or related field
• 2+ years of hands-on experience with PyTorch and/or JAX for deep learning applications
• Strong proficiency in Python scientific computing stack (NumPy, Pandas, scikit-learn)
• Experience with distributed computing and GPU optimization techniques
• Familiarity with protein structure analysis, computational biology, or analogous problems in natural sciences
• Understanding of modern deep learning architectures and optimization techniques
• Experience implementing research papers or translating ML approaches to production systems
• Proficiency with version control (Git), testing frameworks, and software engineering best practices
• Strong problem-solving skills and ability to work independently on technical challenges
• Excellent written and verbal communication skills for cross-functional collaboration
Preferred:
• Experience training LLMs or diffusion generative models
• Knowledge of cloud computing platforms (AWS, GCP) and containerization (Docker, Kubernetes)
• Background in computational biology, bioinformatics, or structural biology
• Experience with large-scale data engineering and ETL pipelines
• Familiarity with MLOps practices and model deployment frameworks
Company:
Manifold Bio is building a protein barcoding platform to bring the power of multiplexed measurement. Founded in 2020, the company is headquartered in Boston, USA, with a team of 11-50 employees. The company is currently Early Stage.

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