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Abstract: GEMME: A Simple and Fast Global Epistatic Model Predicting Mutational Effects

Europe PMC core record MED/31406981 (title and abstract), Molecular biology and evolution 2019 · Peer-reviewed

DOI: 10.1093/molbev/msz179

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1 evidence claim

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GEMME: description: Description Global epistatic model that predicts mutational effects by modelling the evolutionary history of the natural sequences in a protein family's alignment, with a few interpretable parameters. (qa-descriptions-20261011-a-source-gemme2019: abstractText ('predicts mutational outcomes by explicitly modeling the evolutionary history of natural sequences ... GEMME uses only a few biologically meaningful and interpretable parameters'); run-doc-proteingym-readme-md-144fe22b: baselines table, row GEMME (MSA))

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GEMME

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26 evidence rows matching the loaded filters

Claims, original sources and review scope · Release 2026-10-22-1b7cf027e4f6
Property and statement	Original source and location	Review and provenance
attributes.artifact_sha256 64051ec6729aeb65a0e48487ef29f5ad2a81ccb9280bb753129a98de4f7a9ad9 Source metadata	Abstract: GEMME: A Simple and Fast Global Epistatic Model Predicting Mutational Effects Original source ↗ No field-specific location recorded Version: Europe PMC core record MED/31406981 (title and abstract), Molecular biology and evolution 2019 Retrieved: 2026-10-11T00:38:39Z	catalogued No individual claim review recorded Audit details Field: `attributes.artifact_sha256` Source artifact SHA-256: `64051ec6729aeb65a0e48487ef29f5ad2a81ccb9280bb753129a98de4f7a9ad9` Hash scope: SHA-256 of one retrieval of a Europe PMC REST search response. These responses are not byte-stable (a later retrieval can differ in JSON key order); the title and abstractText fields are the evidence. Inspected artifact
Artifact url https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID%3A31406981+AND+SRC%3AMED&format=json&resultType=core Source metadata	Abstract: GEMME: A Simple and Fast Global Epistatic Model Predicting Mutational Effects Original source ↗ No field-specific location recorded Version: Europe PMC core record MED/31406981 (title and abstract), Molecular biology and evolution 2019 Retrieved: 2026-10-11T00:38:39Z	catalogued No individual claim review recorded Audit details Field: `attributes.artifact_url` Source artifact SHA-256: `64051ec6729aeb65a0e48487ef29f5ad2a81ccb9280bb753129a98de4f7a9ad9` Hash scope: SHA-256 of one retrieval of a Europe PMC REST search response. These responses are not byte-stable (a later retrieval can differ in JSON key order); the title and abstractText fields are the evidence. Inspected artifact
Doi 10.1093/molbev/msz179 Source metadata	Abstract: GEMME: A Simple and Fast Global Epistatic Model Predicting Mutational Effects Original source ↗ No field-specific location recorded Version: Europe PMC core record MED/31406981 (title and abstract), Molecular biology and evolution 2019 Retrieved: 2026-10-11T00:38:39Z	catalogued No individual claim review recorded Audit details Field: `attributes.doi` Source artifact SHA-256: `64051ec6729aeb65a0e48487ef29f5ad2a81ccb9280bb753129a98de4f7a9ad9` Hash scope: SHA-256 of one retrieval of a Europe PMC REST search response. These responses are not byte-stable (a later retrieval can differ in JSON key order); the title and abstractText fields are the evidence. Inspected artifact
Hash scope SHA-256 of one retrieval of a Europe PMC REST search response. These responses are not byte-stable (a later retrieval can differ in JSON key order); the title and abstractText fields are the evidence. Source metadata	Abstract: GEMME: A Simple and Fast Global Epistatic Model Predicting Mutational Effects Original source ↗ No field-specific location recorded Version: Europe PMC core record MED/31406981 (title and abstract), Molecular biology and evolution 2019 Retrieved: 2026-10-11T00:38:39Z	catalogued No individual claim review recorded Audit details Field: `attributes.hash_scope` Source artifact SHA-256: `64051ec6729aeb65a0e48487ef29f5ad2a81ccb9280bb753129a98de4f7a9ad9` Hash scope: SHA-256 of one retrieval of a Europe PMC REST search response. These responses are not byte-stable (a later retrieval can differ in JSON key order); the title and abstractText fields are the evidence. Inspected artifact
Licence CC-BY-NC-4.0 Source metadata	Abstract: GEMME: A Simple and Fast Global Epistatic Model Predicting Mutational Effects Original source ↗ No field-specific location recorded Version: Europe PMC core record MED/31406981 (title and abstract), Molecular biology and evolution 2019 Retrieved: 2026-10-11T00:38:39Z	catalogued No individual claim review recorded Audit details Field: `attributes.licence` Source artifact SHA-256: `64051ec6729aeb65a0e48487ef29f5ad2a81ccb9280bb753129a98de4f7a9ad9` Hash scope: SHA-256 of one retrieval of a Europe PMC REST search response. These responses are not byte-stable (a later retrieval can differ in JSON key order); the title and abstractText fields are the evidence. Inspected artifact
Media type application/json Source metadata	Abstract: GEMME: A Simple and Fast Global Epistatic Model Predicting Mutational Effects Original source ↗ No field-specific location recorded Version: Europe PMC core record MED/31406981 (title and abstract), Molecular biology and evolution 2019 Retrieved: 2026-10-11T00:38:39Z	catalogued No individual claim review recorded Audit details Field: `attributes.media_type` Source artifact SHA-256: `64051ec6729aeb65a0e48487ef29f5ad2a81ccb9280bb753129a98de4f7a9ad9` Hash scope: SHA-256 of one retrieval of a Europe PMC REST search response. These responses are not byte-stable (a later retrieval can differ in JSON key order); the title and abstractText fields are the evidence. Inspected artifact
Publication status peer_reviewed Source metadata	Abstract: GEMME: A Simple and Fast Global Epistatic Model Predicting Mutational Effects Original source ↗ No field-specific location recorded Version: Europe PMC core record MED/31406981 (title and abstract), Molecular biology and evolution 2019 Retrieved: 2026-10-11T00:38:39Z	catalogued No individual claim review recorded Audit details Field: `attributes.publication_status` Source artifact SHA-256: `64051ec6729aeb65a0e48487ef29f5ad2a81ccb9280bb753129a98de4f7a9ad9` Hash scope: SHA-256 of one retrieval of a Europe PMC REST search response. These responses are not byte-stable (a later retrieval can differ in JSON key order); the title and abstractText fields are the evidence. Inspected artifact
Retrieved at 2026-10-11T00:38:39Z Source metadata	Abstract: GEMME: A Simple and Fast Global Epistatic Model Predicting Mutational Effects Original source ↗ No field-specific location recorded Version: Europe PMC core record MED/31406981 (title and abstract), Molecular biology and evolution 2019 Retrieved: 2026-10-11T00:38:39Z	catalogued No individual claim review recorded Audit details Field: `attributes.retrieved_at` Source artifact SHA-256: `64051ec6729aeb65a0e48487ef29f5ad2a81ccb9280bb753129a98de4f7a9ad9` Hash scope: SHA-256 of one retrieval of a Europe PMC REST search response. These responses are not byte-stable (a later retrieval can differ in JSON key order); the title and abstractText fields are the evidence. Inspected artifact
Review: date 2026-10-11 Source metadata	Abstract: GEMME: A Simple and Fast Global Epistatic Model Predicting Mutational Effects Original source ↗ No field-specific location recorded Version: Europe PMC core record MED/31406981 (title and abstract), Molecular biology and evolution 2019 Retrieved: 2026-10-11T00:38:39Z	catalogued No individual claim review recorded Audit details Field: `attributes.review.date` Source artifact SHA-256: `64051ec6729aeb65a0e48487ef29f5ad2a81ccb9280bb753129a98de4f7a9ad9` Hash scope: SHA-256 of one retrieval of a Europe PMC REST search response. These responses are not byte-stable (a later retrieval can differ in JSON key order); the title and abstractText fields are the evidence. Inspected artifact
Review: method note Compared the store diff with origin/main, read each new description against its cited source passage and checked the licence of each new source record. Source metadata	Abstract: GEMME: A Simple and Fast Global Epistatic Model Predicting Mutational Effects Original source ↗ No field-specific location recorded Version: Europe PMC core record MED/31406981 (title and abstract), Molecular biology and evolution 2019 Retrieved: 2026-10-11T00:38:39Z	catalogued No individual claim review recorded Audit details Field: `attributes.review.method_note` Source artifact SHA-256: `64051ec6729aeb65a0e48487ef29f5ad2a81ccb9280bb753129a98de4f7a9ad9` Hash scope: SHA-256 of one retrieval of a Europe PMC REST search response. These responses are not byte-stable (a later retrieval can differ in JSON key order); the title and abstractText fields are the evidence. Inspected artifact

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Release 2026-10-22-1b7cf027e4f6 · Record review: source checked

Source text retrieved and hashed for the issue #88 placeholder-description fix.

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Stable ID: qa-descriptions-20261011-a-source-gemme2019

url: https://doi.org/10.1093/molbev/msz179
artifact url: https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID%3A31406981+AND+SRC%3AMED&format=json&resultType=core
version: Europe PMC core record MED/31406981 (title and abstract), Molecular biology and evolution 2019
retrieved at: 2026-10-11T00:38:39Z
artifact sha256: 64051ec6729aeb65a0e48487ef29f5ad2a81ccb9280bb753129a98de4f7a9ad9
publication status: peer_reviewed
media type: application/json
source locator: abstractText
doi: 10.1093/molbev/msz179
hash scope: SHA-256 of one retrieval of a Europe PMC REST search response. These responses are not byte-stable (a later retrieval can differ in JSON key order); the title and abstractText fields are the evidence.
licence: CC-BY-NC-4.0
review: method: automated-source-review; ai-assisted-source-review; reviewer: claude; reviewer note: Extractor: Claude integrator agent for issue #88. Reviewer: a separate Claude review agent, independent of the extractor; no human review claimed.; date: 2026-10-11; method note: Compared the store diff with origin/main, read each new description against its cited source passage and checked the licence of each new source record.; note: Approved. Checked the 10 method and model descriptions against their sources (EVmutation, GEMME and RSALOR abstracts, the FramePool k-mer random forests, the RhoMax BLASSO text) and spot-checked the 49 mRNABench rows against Appendix A; all accurate. Licences on the 3 new sources match their Europe PMC records. At the reviewer's suggestion, the en dash printed in some checkpoint names is written as a hyphen in the descriptions.; receipt: data/omics/qa-descriptions-20261011-a/review.json; retrieval url: https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID%3A31406981+AND+SRC%3AMED&format=json&resultType=core

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