GROQ-seq Function Measurements for TEV Protease ML Libraries
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| Autores principales: | , , , , , , , |
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| Formato: | Recurso digital |
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Zenodo
2026
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| _version_ | 1866902274078408704 |
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| author | Spinner, Aviv Notin, Pascal Berry, Sam Cortade, Dana Sisson, Zach Ikonomova, Svetlana P. Ross, David Marks, Debbie |
| author_facet | Spinner, Aviv Notin, Pascal Berry, Sam Cortade, Dana Sisson, Zach Ikonomova, Svetlana P. Ross, David Marks, Debbie |
| contents | <p>This dataset contains GROQ-seq functional measurements of an ML-designed TEV protease variant library generated by seven generative protein-design models — PSSM, Potts/EVCouplings, EVE, ESM2, Tranception, ESM-IF1, and ProteinMPNN — under a unified Gibbs-sampling framework, alongside an error-prone PCR (epPCR) baseline. Variants are organized into three section libraries (residues 1–78, 79–157, 158–236) and a fully combinatorial library, each filtered for a complete catalytic triad and ≤10 mutations from wild type. Fitness is measured via the same split-DHFR system as the TEV protease pilot across 24 experimental conditions independently varying TEV expression, split-DHFR expression, and trimethoprim selection.</p> <p>This run of the assay was performed at the Living Measurements Systems Foundry (LMSF) at the National Institute of Standards and Technology, alongside the TEV protease pilot. Part of a broader effort to benchmark generative protein-design models against experimental enzyme function — providing a standardized evaluation framework for sequence-, language-, and structure-based approaches and informing model selection for protein engineering. </p> |
| format | Recurso digital |
| id | zenodo_https___doi_org_10_5281_zenodo_19926162 |
| institution | Zenodo |
| language | |
| publishDate | 2026 |
| publisher | Zenodo |
| record_format | zenodo |
| spellingShingle | GROQ-seq Function Measurements for TEV Protease ML Libraries Spinner, Aviv Notin, Pascal Berry, Sam Cortade, Dana Sisson, Zach Ikonomova, Svetlana P. Ross, David Marks, Debbie <p>This dataset contains GROQ-seq functional measurements of an ML-designed TEV protease variant library generated by seven generative protein-design models — PSSM, Potts/EVCouplings, EVE, ESM2, Tranception, ESM-IF1, and ProteinMPNN — under a unified Gibbs-sampling framework, alongside an error-prone PCR (epPCR) baseline. Variants are organized into three section libraries (residues 1–78, 79–157, 158–236) and a fully combinatorial library, each filtered for a complete catalytic triad and ≤10 mutations from wild type. Fitness is measured via the same split-DHFR system as the TEV protease pilot across 24 experimental conditions independently varying TEV expression, split-DHFR expression, and trimethoprim selection.</p> <p>This run of the assay was performed at the Living Measurements Systems Foundry (LMSF) at the National Institute of Standards and Technology, alongside the TEV protease pilot. Part of a broader effort to benchmark generative protein-design models against experimental enzyme function — providing a standardized evaluation framework for sequence-, language-, and structure-based approaches and informing model selection for protein engineering. </p> |
| title | GROQ-seq Function Measurements for TEV Protease ML Libraries |
| url | https://doi.org/10.5281/zenodo.19926162 |