Unirep: description
Description of Unirep
Deep learning representation of protein sequences learned from unlabeled amino-acid sequences, on which simple models predict stability and mutant function, scored in ProteinGym as a zero-shot single-sequence substitution baseline.
Replace a placeholder or provenance description with a sourced functional description (issue #88a). Historical releases retain the original value.
Evidence
Source checking verifies the cited claim or transcription. It does not establish independent reproduction.
Evidence table
Inspect claims, sources and review details
Trace each statement to its source and review. A context-only reference supports the record generally; it does not verify an individual field. Source checking does not reproduce an experiment.
One row per statement and cited source. Multiple citations are not independent evaluations. Shared locators are labelled explicitly.
21 evidence rows matching the loaded filters
| Property and statement | Original source and location | Review and provenance |
|---|---|---|
| Claimed field description Context-only references | Abstract: Unified rational protein engineering with sequence-based deep representation learning uc20260930-source-proteingym-amfr-spearman: Benchmark CSV header (model scored in the zero-shot DMS substitution benchmark); run-doc-proteingym-readme-md-144fe22b: README 'Leaderboard' baseline table (model name, input modalities, reference); qa-descriptions-20261010-source-unirep: abstract Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: Europe PMC core record MED/31636460 (title and abstract), Nature methods 2019 | not individually reviewed No individual claim review recorded Audit detailsField: Source artifact SHA-256: Hash scope: SHA-256 of one retrieval of a Europe PMC REST search response. The response is not byte-stable: on 2026-10-10 a second retrieval of 10 of these 31 records differed only in JSON key order and parsed to identical content. The title and abstractText fields are the evidence. |
| Claimed field description Context-only references | OATML-Markslab/ProteinGym / README.md uc20260930-source-proteingym-amfr-spearman: Benchmark CSV header (model scored in the zero-shot DMS substitution benchmark); run-doc-proteingym-readme-md-144fe22b: README 'Leaderboard' baseline table (model name, input modalities, reference); qa-descriptions-20261010-source-unirep: abstract Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: Git commit 144fe22b07dfaeec2b366f2346203a9838a55b4c | not individually reviewed No individual claim review recorded Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| Claimed field description Context-only references | ProteinGym AMFR assay-level Spearman comparison uc20260930-source-proteingym-amfr-spearman: Benchmark CSV header (model scored in the zero-shot DMS substitution benchmark); run-doc-proteingym-readme-md-144fe22b: README 'Leaderboard' baseline table (model name, input modalities, reference); qa-descriptions-20261010-source-unirep: abstract Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: 144fe22b07dfaeec2b366f2346203a9838a55b4c | not individually reviewed No individual claim review recorded Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| Previous value Named prediction model family identified in the cited primary source. Exact fitted configurations and scores are separate records. Context-only references | Abstract: Unified rational protein engineering with sequence-based deep representation learning uc20260930-source-proteingym-amfr-spearman: Benchmark CSV header (model scored in the zero-shot DMS substitution benchmark); run-doc-proteingym-readme-md-144fe22b: README 'Leaderboard' baseline table (model name, input modalities, reference); qa-descriptions-20261010-source-unirep: abstract Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: Europe PMC core record MED/31636460 (title and abstract), Nature methods 2019 | not individually reviewed No individual claim review recorded Audit detailsField: Source artifact SHA-256: Hash scope: SHA-256 of one retrieval of a Europe PMC REST search response. The response is not byte-stable: on 2026-10-10 a second retrieval of 10 of these 31 records differed only in JSON key order and parsed to identical content. The title and abstractText fields are the evidence. |
| Previous value Named prediction model family identified in the cited primary source. Exact fitted configurations and scores are separate records. Context-only references | OATML-Markslab/ProteinGym / README.md uc20260930-source-proteingym-amfr-spearman: Benchmark CSV header (model scored in the zero-shot DMS substitution benchmark); run-doc-proteingym-readme-md-144fe22b: README 'Leaderboard' baseline table (model name, input modalities, reference); qa-descriptions-20261010-source-unirep: abstract Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: Git commit 144fe22b07dfaeec2b366f2346203a9838a55b4c | not individually reviewed No individual claim review recorded Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| Previous value Named prediction model family identified in the cited primary source. Exact fitted configurations and scores are separate records. Context-only references | ProteinGym AMFR assay-level Spearman comparison uc20260930-source-proteingym-amfr-spearman: Benchmark CSV header (model scored in the zero-shot DMS substitution benchmark); run-doc-proteingym-readme-md-144fe22b: README 'Leaderboard' baseline table (model name, input modalities, reference); qa-descriptions-20261010-source-unirep: abstract Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: 144fe22b07dfaeec2b366f2346203a9838a55b4c | not individually reviewed No individual claim review recorded Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| Source location uc20260930-source-proteingym-amfr-spearman: Benchmark CSV header (model scored in the zero-shot DMS substitution benchmark); run-doc-proteingym-readme-md-144fe22b: README 'Leaderboard' baseline table (model name, input modalities, reference); qa-descriptions-20261010-source-unirep: abstract Context-only references | Abstract: Unified rational protein engineering with sequence-based deep representation learning uc20260930-source-proteingym-amfr-spearman: Benchmark CSV header (model scored in the zero-shot DMS substitution benchmark); run-doc-proteingym-readme-md-144fe22b: README 'Leaderboard' baseline table (model name, input modalities, reference); qa-descriptions-20261010-source-unirep: abstract Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: Europe PMC core record MED/31636460 (title and abstract), Nature methods 2019 | not individually reviewed No individual claim review recorded Audit detailsField: Source artifact SHA-256: Hash scope: SHA-256 of one retrieval of a Europe PMC REST search response. The response is not byte-stable: on 2026-10-10 a second retrieval of 10 of these 31 records differed only in JSON key order and parsed to identical content. The title and abstractText fields are the evidence. |
| Source location uc20260930-source-proteingym-amfr-spearman: Benchmark CSV header (model scored in the zero-shot DMS substitution benchmark); run-doc-proteingym-readme-md-144fe22b: README 'Leaderboard' baseline table (model name, input modalities, reference); qa-descriptions-20261010-source-unirep: abstract Context-only references | OATML-Markslab/ProteinGym / README.md uc20260930-source-proteingym-amfr-spearman: Benchmark CSV header (model scored in the zero-shot DMS substitution benchmark); run-doc-proteingym-readme-md-144fe22b: README 'Leaderboard' baseline table (model name, input modalities, reference); qa-descriptions-20261010-source-unirep: abstract Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: Git commit 144fe22b07dfaeec2b366f2346203a9838a55b4c | not individually reviewed No individual claim review recorded Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| Source location uc20260930-source-proteingym-amfr-spearman: Benchmark CSV header (model scored in the zero-shot DMS substitution benchmark); run-doc-proteingym-readme-md-144fe22b: README 'Leaderboard' baseline table (model name, input modalities, reference); qa-descriptions-20261010-source-unirep: abstract Context-only references | ProteinGym AMFR assay-level Spearman comparison uc20260930-source-proteingym-amfr-spearman: Benchmark CSV header (model scored in the zero-shot DMS substitution benchmark); run-doc-proteingym-readme-md-144fe22b: README 'Leaderboard' baseline table (model name, input modalities, reference); qa-descriptions-20261010-source-unirep: abstract Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: 144fe22b07dfaeec2b366f2346203a9838a55b4c | not individually reviewed No individual claim review recorded Audit detailsField: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| Claimed value Deep learning representation of protein sequences learned from unlabeled amino-acid sequences, on which simple models predict stability and mutant function, scored in ProteinGym as a zero-shot single-sequence substitution baseline. Context-only references | Abstract: Unified rational protein engineering with sequence-based deep representation learning uc20260930-source-proteingym-amfr-spearman: Benchmark CSV header (model scored in the zero-shot DMS substitution benchmark); run-doc-proteingym-readme-md-144fe22b: README 'Leaderboard' baseline table (model name, input modalities, reference); qa-descriptions-20261010-source-unirep: abstract Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: Europe PMC core record MED/31636460 (title and abstract), Nature methods 2019 | not individually reviewed No individual claim review recorded Audit detailsField: Source artifact SHA-256: Hash scope: SHA-256 of one retrieval of a Europe PMC REST search response. The response is not byte-stable: on 2026-10-10 a second retrieval of 10 of these 31 records differed only in JSON key order and parsed to identical content. The title and abstractText fields are the evidence. |
Sources and history
Release 2026-10-22-1b7cf027e4f6 · Record review: source checked
3 source records and release history
- ProteinGym AMFR assay-level Spearman comparison · Original source · 144fe22b07dfaeec2b366f2346203a9838a55b4c
- OATML-Markslab/ProteinGym / README.md · Original source · Git commit 144fe22b07dfaeec2b366f2346203a9838a55b4c
- Abstract: Unified rational protein engineering with sequence-based deep representation learning · Original source · Europe PMC core record MED/31636460 (title and abstract), Nature methods 2019
Technical metadata and extraction receipts
Stable ID: metadata-correction-c68b33ce0013676feedf
- areas
- proteins-complexes
- field
- description
- previous value
- Named prediction model family identified in the cited primary source. Exact fitted configurations and scores are separate records.
- value
- Deep learning representation of protein sequences learned from unlabeled amino-acid sequences, on which simple models predict stability and mutant function, scored in ProteinGym as a zero-shot single-sequence substitution baseline.
- source locator
- uc20260930-source-proteingym-amfr-spearman: Benchmark CSV header (model scored in the zero-shot DMS substitution benchmark); run-doc-proteingym-readme-md-144fe22b: README 'Leaderboard' baseline table (model name, input modalities, reference); qa-descriptions-20261010-source-unirep: abstract
- review
- method: automated-source-review; ai-assisted-source-review; reviewer: claude; reviewer note: Extractor: Claude research agent for issue #88a. Reviewer: separate Claude review agent, independent of the extractor; no human review claimed; date: 2026-10-10; method note: Compared the description with the cited source text (abstract, README row, benchmark CSV header or full-text section) of re-downloaded artifacts, and previous_value with origin/main.; note: Description written from the cited source text; provenance text was generic and is kept here as previous_value. Independent review 2026-10-10: every stated fact is supported by the cited text.
Related records
- subject: Unirep