AI-Guided Protein Engineering to Reduce Experimental Screening and Accelerate Directed Evolution
Reduce Directed Evolution Screening with AI-Guided Protein Engineering
Directed evolution has transformed protein engineering by enabling the discovery of improved enzymes, antibodies, and therapeutic proteins.
However, traditional workflows often require screening thousands—or even millions—of variants, making optimization expensive, time-consuming, and resource-intensive.
Neoncorte Bio applies AI-driven protein engineering to prioritize the most promising variants for experimental testing, helping reduce screening effort while accelerating protein optimization.
The Challenge of Large Screening Libraries
Traditional directed evolution relies on generating diverse mutation libraries followed by extensive laboratory screening.
Although effective, this approach often requires:
- Large experimental libraries
- High screening costs
- Multiple optimization rounds
- Significant laboratory resources
- Long development timelines
- Extensive experimental infrastructure
AI-Guided Variant Prioritization
Rather than evaluating every possible mutation experimentally, Neoncorte Bio uses AI models to identify variants that are most informative or most likely to improve project-specific objectives.
Our computational workflow may incorporate:
- Protein sequence analysis
- Structure-informed modeling
- Protein language models
- Machine learning
- Fitness landscape prediction
- Active learning
- Bayesian optimization
- Multi-objective optimization
- Design-Build-Test-Learn (DBTL) methodologies
Application Areas
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Industrial Enzyme Engineering
Reduce screening requirements during optimization of enzymes for industrial biotechnology.
Benefit: Faster development with more focused experimental campaigns. -
Therapeutic Protein Engineering
Prioritize variants during lead optimization of biologics.
Benefit: Improved R&D efficiency while maintaining rigorous experimental validation. -
Antibody Engineering
Support engineering of therapeutic antibodies with smaller, information-rich libraries.
Benefit: More efficient optimization of developability and functional properties. -
Synthetic Biology
Optimize pathway enzymes using AI-guided mutation selection.
Benefit: Improved productivity with fewer experimental iterations. -
Academic and Research Programs
Accelerate protein engineering projects with computational variant prioritization.
Benefit: Better use of laboratory resources and screening capacity.
Benefits of Reduced Screening
AI-guided prioritization can support:
- Smaller experimental libraries
- Faster optimization cycles
- Reduced laboratory workload
- Lower experimental costs
- More efficient use of screening capacity
- Earlier identification of promising variants
- Improved learning across iterative engineering cycles
Engineering Objectives
Directed evolution campaigns may optimize one or more properties simultaneously, including:
- Catalytic efficiency
- Thermostability
- pH stability
- Solvent tolerance
- Expression yield
- Protein solubility
- Aggregation resistance
- Binding affinity
- Specificity
- Enantioselectivity
- Manufacturability
Design-Build-Test-Learn (DBTL) Integration
Reducing screening effort is most effective when AI and experiments are integrated into iterative optimization.
Neoncorte Bio supports:
- Protein sequence and structural analysis
- AI-guided mutation prioritization
- Focused library design
- Experimental screening
- Machine learning model refinement
- Successive Design-Build-Test-Learn (DBTL) cycles
What Neoncorte Bio Delivers
- AI-guided variant prioritization
- Directed evolution support
- Fitness landscape prediction
- Active learning workflows
- Bayesian optimization
- Focused library design
- Multi-parameter protein optimization
- Design-Build-Test-Learn (DBTL) integration
- Confidential B2B protein engineering partnerships
Who We Work With
- Industrial biotechnology companies
- Enzyme manufacturers
- Biopharmaceutical companies
- Antibody discovery organizations
- Synthetic biology companies
- CDMOs and CROs
- Agricultural biotechnology companies
- Academic research organizations
Frequently Asked Questions (FAQs)
Our platform harnesses advanced artificial intelligence and machine learning to design, optimize, and engineer proteins tailored to your specific requirements. Whether you need improved enzyme efficiency, novel protein functions, or tailored biotherapeutics, our solutions streamline the protein design process and reduce time-to-market.
Our services are ideal for biotechnology and pharmaceutical companies, academic research labs, industrial manufacturers, and any organization involved in protein-based product development. Applications include enzyme optimization, biocatalyst development, therapeutic protein design, and more.
The process begins with your input data, such as protein sequences, structural information, and desired functional attributes. Our AI algorithms then generate a library of potential protein variants and use predictive modeling to evaluate their stability, activity, and specificity. The top candidates are ranked and provided for further experimental validation, thereby reducing the number of required lab iterations.
Our platform is versatile and can be applied to a wide range of proteins, including enzymes, structural proteins, and therapeutic proteins. We can optimize existing proteins or design novel ones for applications in catalysis, biopharmaceuticals, diagnostics, and more.
Absolutely. We work closely with you to tailor our AI models and algorithms to your target proteins and desired outcomes. This includes integrating proprietary data and fine-tuning parameters to ensure that our platform delivers the most relevant and high-performing protein candidates for your application.
Our platform offers robust API support and standard data export formats (e.g., CSV, JSON) to seamlessly integrate with your Laboratory Information Management Systems (LIMS) and other data analytics pipelines. We also provide comprehensive onboarding and training to ensure a smooth adoption process.
Our models are trained on extensive datasets of protein interactions, structural data, and experimental results. We continuously refine our algorithms with real-world feedback to improve prediction accuracy. While our computational predictions are highly reliable, we recommend subsequent in vitro or in vivo validation to confirm the performance of the engineered proteins.
Yes, we provide collaborative support throughout the validation process. Our team can help design proof-of-concept studies and coordinate with your wet lab partners to verify the performance of our predicted protein variants.
We offer flexible pricing models based on the scope and duration of your project. Options include subscription-based plans for ongoing R&D, as well as project-specific pricing for one-off protein engineering campaigns. Please contact us for a personalized consultation and detailed quote.
Our dedicated customer support team is available to assist you at every stage—from initial onboarding and technical training to troubleshooting and ongoing optimization. We offer support via email, phone, and live chat, along with detailed documentation and a comprehensive FAQ section.
Accelerate Directed Evolution with Smarter Screening
Contact us to discuss your AI-guided directed evolution project
Neoncorte Bio
Where AI Meets Biotechnology
Neoncorte Bio is at the forefront of the convergence between artificial intelligence and enzyme engineering. Our team comprises experts in computational biology, bioinformatics, and machine learning, all driven by a mission to accelerate innovation in enzyme design. By leveraging our advanced AI models, we provide unparalleled solutions that enhance efficiency, reduce costs, and push the boundaries of what's possible in enzyme engineering
Proud Member of Leading Global AI Programs
Neoncorte Bio is part of the NVIDIA Inception and Nebius for Startups programs — two of the world’s leading ecosystems for high-performance AI innovation. These partnerships strengthen our ability to deliver next-generation AI-driven protein, enzyme, and aptamer engineering.
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As a member of NVIDIA Inception, Neoncorte Bio gains access to cutting-edge GPU technologies, expert guidance, and a global AI ecosystem that supports companies from prototype to production. The program empowers us to explore new AI opportunities and build high-performance biological design pipelines powered by NVIDIA’s world-class platform. -
Through Nebius for Startups, we gain access to high-performance compute infrastructure optimized for large-scale AI workloads, along with hands-on technical guidance and a strong community of innovative AI companies. Nebius enables us to train and deploy complex biological models more efficiently — accelerating enzyme, protein, and aptamer design while supporting rapid scaling of our R&D pipelines.
Publications
Scientific Publication of Neoncorte Bio Team
- Modification of natural enzymes to introduce new properties and enhance existing ones is a central challenge in bioengineering. This study is focused on the development of Taq polymerase mutants that show enhanced reverse transcriptase (RTase) activity while retaining other desirable properties such as fidelity, 5′-3′ exonuclease activity, effective deoxyuracil incorporation, and tolerance to locked nucleic acid (LNA)-containing substrates.
- The transcriptomic data are being frequently used in the research of biomarker genes of different diseases and biological states. The most common tasks there are the data harmonization and treatment outcome prediction. Both of them can be addressed via the style transfer approach. Either technical factors or any biological details about the samples which we would like to control (gender, biological state, treatment, etc.) can be used as style components.
- List of all Neoncorte Bio publications dedicated to Molecular Biology, Biotechnology, Artificial Intelligence and Artificial Neural Networks, published mostly by Nikolay Russkikh, CEO of Neoncorte Bio
Our Expertise in Action
With extensive experience in AI applications and software engineering tailored to the life sciences, we specialize in solving complex challenges and delivering innovative solutions for our customers. Our work demonstrates a deep understanding of cutting-edge technologies and their application in the real world.
Here are examples of the types of projects we have successfully delivered:
Here are examples of the types of projects we have successfully delivered:
- Automated NGS Data Analysis:Designed a production-grade solution for the automated processing, annotation, and analysis of Next-Generation Sequencing (NGS) data.
- Single-Cell Data Integration:Built state-of-the-art tools for integrating multimodal single-cell data, achieving recognition for technical excellence.
- Metagenomic Classification Algorithms:Developed advanced methods for classifying sequencing reads in metagenomics research.
- High-Throughput Image Processing Pipelines:Engineered an efficient pipeline to process millions of sequencing images with exceptional accuracy.
- Cell Counting via AI:Created a computer vision solution for precise cell counting in microphotography images, streamlining data analysis.
Get in touch with our team
Phone: +1-503-754-3958
Email: contact@neoncorte.com
Email: contact@neoncorte.com
© All Rights Reserved. Neoncorte Bio. 2024-2026
contact@neoncorte.com
contact@neoncorte.com