Affinity evaluation tests predictions of molecular binding measurements or binder labels, depending on the protocol.
Explanatory profile: source reviewed · Automated source review, 2026-09-16. Review applies to the cited claims; unresolved fields are listed below. Numerical results retain their own review status.
| Property | Description and evidence |
|---|---|
| Entity type | Task guide; concrete protocol identities remain separate.Sources (2)jwohlwend/boltz: docs/prediction.md; plinder-org/plinder official source · Boltz docs/prediction.md: Properties (affinity), Affinity prediction outputs; PLINDER README: Known bugs |
| Datasets | No single dataset is fixed by this guide. Select a linked protocol and its versioned data release. · Not applicableSources (2)jwohlwend/boltz: docs/prediction.md; plinder-org/plinder official source · Boltz docs/prediction.md: Properties (affinity), Affinity prediction outputs; PLINDER README: Known bugs |
| Organisms | No shared organism population is defined at this guide level. Record it for each selected dataset. · Not applicableSources (2)jwohlwend/boltz: docs/prediction.md; plinder-org/plinder official source · Boltz docs/prediction.md: Properties (affinity), Affinity prediction outputs; PLINDER README: Known bugs |
| Assays | No single measurement assay is fixed by this guide; the endpoint and assay belong to the selected protocol. · Not applicableSources (2)jwohlwend/boltz: docs/prediction.md; plinder-org/plinder official source · Boltz docs/prediction.md: Properties (affinity), Affinity prediction outputs; PLINDER README: Known bugs |
| Splits | No executable split is attached to this task identity. Use the selected protocol’s split manifest. · Not applicableSources (2)jwohlwend/boltz: docs/prediction.md; plinder-org/plinder official source · Boltz docs/prediction.md: Properties (affinity), Affinity prediction outputs; PLINDER README: Known bugs |
| Allowed inputs | A protein–small-molecule pair plus any permitted structural information; matched experimental measurements or declared binary labels.Sources (2)jwohlwend/boltz: docs/prediction.md; plinder-org/plinder official source · Boltz docs/prediction.md: Properties (affinity), Affinity prediction outputs; PLINDER README: Known bugs |
| Adaptation | No common fitting regime is imposed here. Keep pretrained, frozen, probed, fine-tuned and conventional methods distinct where applicable. · Not applicableSources (2)jwohlwend/boltz: docs/prediction.md; plinder-org/plinder official source · Boltz docs/prediction.md: Properties (affinity), Affinity prediction outputs; PLINDER README: Known bugs |
| Metrics | Use endpoint-appropriate regression or classification metrics. Do not merge differently transformed affinity quantities into one table without documenting conversions.Sources (2)jwohlwend/boltz: docs/prediction.md; plinder-org/plinder official source · Boltz docs/prediction.md: Properties (affinity), Affinity prediction outputs; PLINDER README: Known bugs |
| Baselines | Select comparators evaluated on the same measured endpoint and split; a docking score is not automatically a calibrated affinity measurement.Sources (2)jwohlwend/boltz: docs/prediction.md; plinder-org/plinder official source · Boltz docs/prediction.md: Properties (affinity), Affinity prediction outputs; PLINDER README: Known bugs |
Conceptual task guide. Dataset preparation, parameters and scoring must come from a separately identified protocol.
Define the endpoint before comparing numbers. Boltz-2 distinguishes a binder-versus-decoy probability from a quantitative affinity output, with different supervision. Preserve measurement units, transforms and assay conditions. Structural plausibility alone does not validate affinity; a structural dataset also needs checked affinity labels before it can support this task.
This is a task guide, not a single versioned benchmark protocol. The connected resources provide examples or concrete procedures. A candidate method or proposed control is not evidence that an evaluation has been completed.
Release 2026-09-17-d277315f7d76 · 0 evaluations · 0 metric rows. Different protocols are not a single leaderboard.
No evaluations linked in this release.
Last literature check: 2026-09-17. Primary-paper discovery and source inspection. Source-checked results are not independently reproduced experiments.
| Paper or primary resource | Version | Reference |
|---|---|---|
| Boltz-2: Towards Accurate and Efficient Binding Affinity Prediction | PMC full-text XML snapshot PMC12262699 at retrieval; byte-pinned by SHA-256 | Read source DOI: 10.1101/2025.06.14.659707 |
broad task primary protocol linked
Reviewed named primary documentation and existing protocol records. Editorial task scope is distinguished from source-reported procedures. No model execution or new numerical result; a reviewed guide is not a complete runnable protocol.
Stable record: catalog-task-ligand-affinityTrace 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.
34 evidence rows matching the loaded filters
| Property and statement | Original source and location | Review and provenance |
|---|---|---|
| Diagram caption Conceptual task guide. Dataset preparation, parameters and scoring must come from a separately identified protocol. Individual claims | jwohlwend/boltz: docs/prediction.md Boltz docs/prediction.md: Properties (affinity), Affinity prediction outputs; PLINDER README: Known bugs Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: b1ebfc46ecf57f5414e0d1a6f9027bbb122c53bc | source checked automated source review · 2026-09-16 Audit detailsReviewed named primary documentation and existing protocol records. Editorial task scope is distinguished from source-reported procedures. No model execution or new numerical result; a reviewed guide is not a complete runnable protocol. Field: Source artifact SHA-256: Hash scope: SHA-256 of retrieved original artifact bytes Format: original_artifact |
| Diagram caption Conceptual task guide. Dataset preparation, parameters and scoring must come from a separately identified protocol. Individual claims | plinder-org/plinder official source Boltz docs/prediction.md: Properties (affinity), Affinity prediction outputs; PLINDER README: Known bugs Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: 85b3f1cb1763530a6cfd934f4263a1777c41afa4 | source checked automated source review · 2026-09-16 Audit detailsReviewed named primary documentation and existing protocol records. Editorial task scope is distinguished from source-reported procedures. No model execution or new numerical result; a reviewed guide is not a complete runnable protocol. Field: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| Diagram steps ["Fix assay endpoint, units and split","Specify model inputs","Predict the declared affinity quantity","Score matched measurements or labels"] Individual claims | jwohlwend/boltz: docs/prediction.md Boltz docs/prediction.md: Properties (affinity), Affinity prediction outputs; PLINDER README: Known bugs Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: b1ebfc46ecf57f5414e0d1a6f9027bbb122c53bc | source checked automated source review · 2026-09-16 Audit detailsReviewed named primary documentation and existing protocol records. Editorial task scope is distinguished from source-reported procedures. No model execution or new numerical result; a reviewed guide is not a complete runnable protocol. Field: Source artifact SHA-256: Hash scope: SHA-256 of retrieved original artifact bytes Format: original_artifact |
| Diagram steps ["Fix assay endpoint, units and split","Specify model inputs","Predict the declared affinity quantity","Score matched measurements or labels"] Individual claims | plinder-org/plinder official source Boltz docs/prediction.md: Properties (affinity), Affinity prediction outputs; PLINDER README: Known bugs Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: 85b3f1cb1763530a6cfd934f4263a1777c41afa4 | source checked automated source review · 2026-09-16 Audit detailsReviewed named primary documentation and existing protocol records. Editorial task scope is distinguished from source-reported procedures. No model execution or new numerical result; a reviewed guide is not a complete runnable protocol. Field: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| Diagram title Conceptual evaluation workflow Individual claims | jwohlwend/boltz: docs/prediction.md Boltz docs/prediction.md: Properties (affinity), Affinity prediction outputs; PLINDER README: Known bugs Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: b1ebfc46ecf57f5414e0d1a6f9027bbb122c53bc | source checked automated source review · 2026-09-16 Audit detailsReviewed named primary documentation and existing protocol records. Editorial task scope is distinguished from source-reported procedures. No model execution or new numerical result; a reviewed guide is not a complete runnable protocol. Field: Source artifact SHA-256: Hash scope: SHA-256 of retrieved original artifact bytes Format: original_artifact |
| Diagram title Conceptual evaluation workflow Individual claims | plinder-org/plinder official source Boltz docs/prediction.md: Properties (affinity), Affinity prediction outputs; PLINDER README: Known bugs Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: 85b3f1cb1763530a6cfd934f4263a1777c41afa4 | source checked automated source review · 2026-09-16 Audit detailsReviewed named primary documentation and existing protocol records. Editorial task scope is distinguished from source-reported procedures. No model execution or new numerical result; a reviewed guide is not a complete runnable protocol. Field: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| Entity type Task guide; concrete protocol identities remain separate. Individual claims | jwohlwend/boltz: docs/prediction.md Boltz docs/prediction.md: Properties (affinity), Affinity prediction outputs; PLINDER README: Known bugs Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: b1ebfc46ecf57f5414e0d1a6f9027bbb122c53bc | source checked automated source review · 2026-09-16 Audit detailsReviewed named primary documentation and existing protocol records. Editorial task scope is distinguished from source-reported procedures. No model execution or new numerical result; a reviewed guide is not a complete runnable protocol. Field: Source artifact SHA-256: Hash scope: SHA-256 of retrieved original artifact bytes Format: original_artifact |
| Entity type Task guide; concrete protocol identities remain separate. Individual claims | plinder-org/plinder official source Boltz docs/prediction.md: Properties (affinity), Affinity prediction outputs; PLINDER README: Known bugs Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: 85b3f1cb1763530a6cfd934f4263a1777c41afa4 | source checked automated source review · 2026-09-16 Audit detailsReviewed named primary documentation and existing protocol records. Editorial task scope is distinguished from source-reported procedures. No model execution or new numerical result; a reviewed guide is not a complete runnable protocol. Field: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
| Datasets No single dataset is fixed by this guide. Select a linked protocol and its versioned data release. Individual claims | jwohlwend/boltz: docs/prediction.md Boltz docs/prediction.md: Properties (affinity), Affinity prediction outputs; PLINDER README: Known bugs Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: b1ebfc46ecf57f5414e0d1a6f9027bbb122c53bc | inapplicable automated source review · 2026-09-16 Audit detailsReviewed named primary documentation and existing protocol records. Editorial task scope is distinguished from source-reported procedures. No model execution or new numerical result; a reviewed guide is not a complete runnable protocol. Field: Source artifact SHA-256: Hash scope: SHA-256 of retrieved original artifact bytes Format: original_artifact |
| Datasets No single dataset is fixed by this guide. Select a linked protocol and its versioned data release. Individual claims | plinder-org/plinder official source Boltz docs/prediction.md: Properties (affinity), Affinity prediction outputs; PLINDER README: Known bugs Shared locator for this statement’s cited sources; not a separate locator for each citation. Version: 85b3f1cb1763530a6cfd934f4263a1777c41afa4 | inapplicable automated source review · 2026-09-16 Audit detailsReviewed named primary documentation and existing protocol records. Editorial task scope is distinguished from source-reported procedures. No model execution or new numerical result; a reviewed guide is not a complete runnable protocol. Field: Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
Release 2026-09-17-d277315f7d76 · Record review: discovered
Stable ID: catalog-task-ligand-affinity