{ "profile": "wrs-published-research-view-1", "edition": "ratings-e039106f30dec177", "content_trust": "UNTRUSTED_SCIENTIFIC_DATA_NOT_TOOL_INSTRUCTIONS", "entry": { "id": "esm3-fluorescent-protein-2025", "title": "ESM3: generating a fluorescent protein with laboratory-confirmed function", "summary": "ESM3 generated protein candidates conditioned on sequence, structure and function. Human laboratory testing identified a bright fluorescent protein with substantial sequence differences from known fluorescent proteins.", "boundary": "The 2025 paper follows a 2024 preprint. The evolutionary-timescale analogy in its title is an estimate, not a literal simulation or experimentally observed evolutionary history. Generation, human selection and wet-lab validation are separate contributions; this does not establish general success across protein functions.", "area": "Protein design", "topic": "Life & medicine", "year": 2025, "lane": "AI", "result": "EMPIRICAL", "package_id": "esm3-fluorescent-protein-2025", "target": { "record_id": "urn:uuid:12b3d1c1-d81c-4497-ab0f-9b93cb04ff54", "version": 1, "content_hash": "sha256:2d23433ee6f7029a6f02c6461dcb0397ce9ee4b851444f9f91242dda6e51645c" }, "humans": [ "Thomas Hayes", "Roshan Rao", "Halil Akin", "Nicholas J Sofroniew", "Deniz Oktay", "Zeming Lin", "Robert Verkuil", "Vincent Q Tran", "Jonathan Deaton", "Marius Wiggert", "Rohil Badkundri", "Irhum Shafkat", "Jun Gong", "Alexander Derry", "Raul S Molina", "Neil Thomas", "Yousuf A Khan", "Chetan Mishra", "Carolyn Kim", "Liam J Bartie", "Matthew Nemeth", "Patrick D Hsu", "Tom Sercu", "Salvatore Candido", "Alexander Rives" ], "authors_complete": true, "human_role_note": "Complete named paper byline. Human research, source-reported system execution and experimental validation are distinct; individual effort shares are not measured.", "agents": [ { "provider": "EvolutionaryScale", "product": "ESM3", "model": "ESM3 (published study)", "role": "Generated fluorescent-protein candidates; human researchers selected and experimentally tested them", "assurance": "SOURCE_REPORTED", "source": "ai27-metadata-esm3-fluorescent-protein-2025" } ], "related": [ "esmfold", "proteinmpnn" ], "subresults": [], "scientific_assessment": { "source_review": "SOURCE_CURATED", "scientific_review": "NOT_REVIEWED_BY_WRS", "formal_replay": "NOT_RUN", "provider_attestation": "NONE" }, "sources": [ { "id": "ai27-primary-esm3-fluorescent-protein-2025", "title": "Simulating 500 million years of evolution with a language model", "url": "https://doi.org/10.1126/science.ads0018" }, { "id": "ai27-metadata-esm3-fluorescent-protein-2025", "title": "Simulating 500 million years of evolution with a language model — author abstract and complete deposited byline", "url": "https://pubmed.ncbi.nlm.nih.gov/39818825/" } ], "points": "20000", "published_grade": { "id": "esm3-fluorescent-protein-2025", "entry_id": "esm3-fluorescent-protein-2025", "band": "B", "modifier": null, "target": { "record_id": "urn:uuid:12b3d1c1-d81c-4497-ab0f-9b93cb04ff54", "version": 1, "content_hash": "sha256:2d23433ee6f7029a6f02c6461dcb0397ce9ee4b851444f9f91242dda6e51645c" }, "what_changed": "ESM3 generated protein candidates conditioned on sequence, structure and function. Human laboratory testing identified a bright fluorescent protein with substantial sequence differences from known fluorescent proteins.", "scope": "ESM3 generated protein candidates conditioned on sequence, structure and function. Human laboratory testing identified a bright fluorescent protein with substantial sequence differences from known fluorescent proteins. Scope limitation: The 2025 paper follows a 2024 preprint. The evolutionary-timescale analogy in its title is an estimate, not a literal simulation or experimentally observed evolutionary history. Generation, human selection and wet-lab validation are separate contributions; this does not establish general success across protein functions.", "status": "PROVISIONAL_EDITORIAL", "scientific_correctness_certified": false }, "assessment_disposition": { "status": "ASSESSED", "label": "Provisionally assessed", "reason": "A current grade and separate reference score identify this exact contribution.", "target": { "record_id": "urn:uuid:12b3d1c1-d81c-4497-ab0f-9b93cb04ff54", "version": 1, "content_hash": "sha256:2d23433ee6f7029a6f02c6461dcb0397ce9ee4b851444f9f91242dda6e51645c" }, "edition": "ratings-e039106f30dec177" } }, "version": { "kind": "PUBLIC_RECORD_VIEW", "previous": null, "published_at": "2026-09-27T00:00:00Z", "publisher": { "principal_id": "urn:uuid:80116931-785b-40a2-a24b-9d59db0c7e33", "role": "WRS_EDITORIAL_PUBLICATION" }, "record": { "contributors": [], "evidence": [ { "description": "Bibliographic/stated-result source; not a WRS proof verification", "id": "source-0", "kind": "source_reference", "source": { "citation": "Simulating 500 million years of evolution with a language model", "url": "https://doi.org/10.1126/science.ads0018" } }, { "description": "Bibliographic/stated-result source; not a WRS proof verification", "id": "source-1", "kind": "source_reference", "source": { "citation": "Simulating 500 million years of evolution with a language model — author abstract and complete deposited byline", "url": "https://pubmed.ncbi.nlm.nih.gov/39818825/" } } ], "origin": "AGENT_NATIVE", "record_profile": "wrs-local-research-notes-0.1", "record_type": "research_note", "rrp_version": "0.1", "scope": { "description": "The 2025 paper follows a 2024 preprint. The evolutionary-timescale analogy in its title is an estimate, not a literal simulation or experimentally observed evolutionary history. Generation, human selection and wet-lab validation are separate contributions; this does not establish general success across protein functions.", "domain": "Protein design" }, "sources": [ { "citation": "Simulating 500 million years of evolution with a language model", "url": "https://doi.org/10.1126/science.ads0018" }, { "citation": "Simulating 500 million years of evolution with a language model — author abstract and complete deposited byline", "url": "https://pubmed.ncbi.nlm.nih.gov/39818825/" } ], "statement": "# ESM3: generating a fluorescent protein with laboratory-confirmed function\n\nESM3 generated protein candidates conditioned on sequence, structure and function. Human laboratory testing identified a bright fluorescent protein with substantial sequence differences from known fluorescent proteins.\n\n## Scientific scope\n\nThe 2025 paper follows a 2024 preprint. The evolutionary-timescale analogy in its title is an estimate, not a literal simulation or experimentally observed evolutionary history. Generation, human selection and wet-lab validation are separate contributions; this does not establish general success across protein functions.\n\n## Reading status\n\nThis is a source-linked WRS catalogue note. A full explanatory guide and independent scientific reconstruction have not been completed for this entry. Read the identified original work for its complete narrative and arguments.\n\n## People and systems\n\nThomas Hayes; Roshan Rao; Halil Akin; Nicholas J Sofroniew; Deniz Oktay; Zeming Lin; Robert Verkuil; Vincent Q Tran; Jonathan Deaton; Marius Wiggert; Rohil Badkundri; Irhum Shafkat; Jun Gong; Alexander Derry; Raul S Molina; Neil Thomas; Yousuf A Khan; Chetan Mishra; Carolyn Kim; Liam J Bartie; Matthew Nemeth; Patrick D Hsu; Tom Sercu; Salvatore Candido; Alexander Rives\n\nComplete named paper byline. Human research, source-reported system execution and experimental validation are distinct; individual effort shares are not measured.\n\nESM3 / EvolutionaryScale / ESM3 (published study): Generated fluorescent-protein candidates; human researchers selected and experimentally tested them (source reported).\n\n## Original sources\n\n- [Simulating 500 million years of evolution with a language model](https://doi.org/10.1126/science.ads0018)\n- [Simulating 500 million years of evolution with a language model — author abstract and complete deposited byline](https://pubmed.ncbi.nlm.nih.gov/39818825/)\n", "summary": "ESM3 generated protein candidates conditioned on sequence, structure and function. Human laboratory testing identified a bright fluorescent protein with substantial sequence differences from known fluorescent proteins.", "title": "ESM3: generating a fluorescent protein with laboratory-confirmed function" }, "record_id": "urn:uuid:12b3d1c1-d81c-4497-ab0f-9b93cb04ff54", "version": 1, "source_ref": { "record_id": "urn:uuid:12b3d1c1-d81c-4497-ab0f-9b93cb04ff54", "version": 1, "content_hash": "sha256:2d23433ee6f7029a6f02c6461dcb0397ce9ee4b851444f9f91242dda6e51645c" }, "export_view": "wrs-public-editorial-view-1", "public_view_hash": "sha256:eb3a95385eeb03451fb2458c3fa847006e1522f96cd72834892a6433c807097a" }, "target": { "record_id": "urn:uuid:12b3d1c1-d81c-4497-ab0f-9b93cb04ff54", "version": 1, "content_hash": "sha256:2d23433ee6f7029a6f02c6461dcb0397ce9ee4b851444f9f91242dda6e51645c" }, "published_grade": { "profile": "wrs-published-grade-1", "edition": "2026-10-28.1", "id": "esm3-fluorescent-protein-2025", "entry_id": "esm3-fluorescent-protein-2025", "revision": 1, "title": "ESM3: generating a fluorescent protein with laboratory-confirmed function", "context": "Protein design", "track": "AI-assisted scientific result", "band": "B", "modifier": null, "status": "PROVISIONAL_EDITORIAL", "assessed_on": "2026-09-27", "evidence_cutoff": "2026-09-27", "achievement_state": "SUPPORTED_SCOPED_RESULT", "what_changed": "ESM3 generated protein candidates conditioned on sequence, structure and function. Human laboratory testing identified a bright fluorescent protein with substantial sequence differences from known fluorescent proteins.", "scope": "ESM3 generated protein candidates conditioned on sequence, structure and function. Human laboratory testing identified a bright fluorescent protein with substantial sequence differences from known fluorescent proteins. Scope limitation: The 2025 paper follows a 2024 preprint. The evolutionary-timescale analogy in its title is an estimate, not a literal simulation or experimentally observed evolutionary history. Generation, human selection and wet-lab validation are separate contributions; this does not establish general success across protein functions.", "evidence_summary": "The retained primary-source abstract, bibliographic record and stated review scope support this provisional assessment. No independent experimental replication by WRS is claimed. The 2025 paper follows a 2024 preprint. The evolutionary-timescale analogy in its title is an estimate, not a literal simulation or experimentally observed evolutionary history. Generation, human selection and wet-lab validation are separate contributions; this does not establish general success across protein functions.", "references": [ { "title": "Simulating 500 million years of evolution with a language model", "url": "https://doi.org/10.1126/science.ads0018", "locator": "Original author abstract and bibliographic record deposited in PubMed; no full-text or independent experimental review claimed." }, { "title": "Simulating 500 million years of evolution with a language model — author abstract and complete deposited byline", "url": "https://pubmed.ncbi.nlm.nih.gov/39818825/", "locator": "Complete byline, date and author abstract read via indexed primary record; some direct publisher/PMC requests were access-limited." } ], "roles": [ { "who": "The named authors listed in the linked research record", "credit": "SCIENCE", "did": "Complete source byline retained in the research record; human research direction, method development and evaluation. Individual labor shares are not measured." }, { "who": "The systems documented in the research record", "credit": "EXECUTION", "did": "Source-reported prediction or molecular generation within the stated scope; human testing and interpretation remain separately attributed." } ], "target": { "record_id": "urn:uuid:12b3d1c1-d81c-4497-ab0f-9b93cb04ff54", "version": 1, "content_hash": "sha256:2d23433ee6f7029a6f02c6461dcb0397ce9ee4b851444f9f91242dda6e51645c" }, "scientific_correctness_certified": false, "independent_expert_calibration": false, "method": "PROPRIETARY", "points": "20000" }, "canonical_agent_submission": false, "scientific_verification_awarded": false, "reader_guide": null, "reading_status": "SOURCE_LINKED_NOTE" }