rewirebio.iobenchmarks
Evaluation

BDA-Rand (Claude 3.5 Sonnet backbone) on Sanchez Down (Gupta et al. 2025)

Published comparison; transcribed, not reproduced.

Research readiness

These checks assess whether the evidence supports a reproducible investigation. A source-checked score alone does not meet these requirements.

Release 2026-10-10-6e93f504adfc · Evidence verified: Not verified

Evidence incomplete

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Exact outcomes, predictions, identifiers and evaluator are connected.

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  • artifact hashes: verification is missing
  • join integrity: verification is missing
  • score semantics: verification is missing
  • metric replay: verification is missing

Verified: Not verified

Evidence incomplete

Investigate discrepancies

Replay evidence includes annotations and an assessment of dependence. Unknown independence permits descriptive analysis only.

Missing or unresolved evidence

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  • join integrity: verification is missing
  • score semantics: verification is missing
  • metric replay: verification is missing
  • annotations: verification is missing
  • dependence: verification is missing

Verified: Not verified

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Run locally

A pinned recipe describes the inputs, environment and resource requirements.

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Verified: Not verified

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Validate independently

Separate data and exposure records support an independent test.

Missing or unresolved evidence

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Verified: Not verified

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Evaluation results

1 evaluation · 1 result. Different protocols are not a single leaderboard.

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Applied filters: All linked evaluations

Exact evaluated configurations and original reported results
Tested configurationProtocol and datasetFindingEvidence and details
Configuration: BDA-Rand, claude-3-5-sonnet backbone (Gupta et al. 2025)Protocol: Independent replication of 1-gene perturbation design: cumulative hits after 5 rounds of 128 genes
Dataset: Sanchez et al. 2021 screen, decreased endogenous tau protein level in neurons
57.6 true-positive-count
count · higher

Uncertainty: Not reported by the source

Coverage: Not reported scored / Not reported eligible

Independent external evaluation · Source checked
Methods, coverage and source

BDA-Rand (Claude 3.5 Sonnet backbone) on Sanchez Down (Gupta et al. 2025)

tgtval-20261009-protocol-gupta2025-cumulative-hits-round5

Aggregation: Not reported

LLMs for Bayesian Optimization in Scientific Domains: Are We There Yet? · Table 1, 'Claude 3.5 Sonnet backbone' block, row 'BDA-Rand', column 'Sanchez Down'

Source checking is not independent reproduction. Release 2026-10-10-6e93f504adfc.

Evaluation procedure

tgtval-20261009-protocol-gupta2025-cumulative-hits-round5

Configuration
BDA-Rand, claude-3-5-sonnet backbone (Gupta et al. 2025)
Protocol
Independent replication of 1-gene perturbation design: cumulative hits after 5 rounds of 128 genes
Dataset
Sanchez et al. 2021 screen, decreased endogenous tau protein level in neurons
origin
Independent external evaluation
configuration
Primary source as retrieved 2026-10-09
protocol id
tgtval-20261009-protocol-gupta2025-cumulative-hits-round5
dataset version
Offline replay of the screen
split
No training split; 5 sequential selection rounds
population
Genes assayed by the Sanchez Down screen
inputs
Phenotype description and the outcomes revealed in previous rounds, true or permuted
adaptation
Selection only
metric implementation
Not reported
aggregation
Mean over 5 runs
budget
5 rounds x 128 genes

Metadata review: source checked. Unreported conditions prevent automatic comparisons.

Reproduction

Split
No training split; 5 sequential selection rounds
Adaptation
Selection only
Scoring implementation
Not reported

No execution recipe has been verified for this exact configuration and evaluation. A benchmark's general instructions may use different inputs, splits or model settings.

Reproducing this published result requires matching its model configuration, data, split and scorer. Source checking or a successful smoke test does not establish score reproduction.

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.

18 evidence rows matching the loaded filters

Claims, original sources and review scope · Release 2026-10-10-6e93f504adfc
Property and statementOriginal source and locationReview and provenance
attributes.comparison.adaptation
Selection only
Context-only references
LLMs for Bayesian Optimization in Scientific Domains: Are We There Yet?

Original source ↗

Table 1, 'Claude 3.5 Sonnet backbone' block, row 'BDA-Rand', column 'Sanchez Down'

Version: Findings of the Association for Computational Linguistics: EMNLP 2025, pages 15482-15510
Retrieved: 2026-10-09T20:55:36Z

not individually reviewed

No individual claim review recorded

independent paper

Audit details

Field: attributes.comparison.adaptation

Source artifact SHA-256: 7dda0b590f2736b7d30e48b97167a0868a2b4bde253589d8aff7929d01506ff9

Hash scope: pdftotext -layout text layer, parsed by extract/extract_target_validation.py

Inspected artifact

attributes.comparison.aggregation
Mean over 5 runs
Context-only references
LLMs for Bayesian Optimization in Scientific Domains: Are We There Yet?

Original source ↗

Table 1, 'Claude 3.5 Sonnet backbone' block, row 'BDA-Rand', column 'Sanchez Down'

Version: Findings of the Association for Computational Linguistics: EMNLP 2025, pages 15482-15510
Retrieved: 2026-10-09T20:55:36Z

not individually reviewed

No individual claim review recorded

independent paper

Audit details

Field: attributes.comparison.aggregation

Source artifact SHA-256: 7dda0b590f2736b7d30e48b97167a0868a2b4bde253589d8aff7929d01506ff9

Hash scope: pdftotext -layout text layer, parsed by extract/extract_target_validation.py

Inspected artifact

attributes.comparison.budget
5 rounds x 128 genes
Context-only references
LLMs for Bayesian Optimization in Scientific Domains: Are We There Yet?

Original source ↗

Table 1, 'Claude 3.5 Sonnet backbone' block, row 'BDA-Rand', column 'Sanchez Down'

Version: Findings of the Association for Computational Linguistics: EMNLP 2025, pages 15482-15510
Retrieved: 2026-10-09T20:55:36Z

not individually reviewed

No individual claim review recorded

independent paper

Audit details

Field: attributes.comparison.budget

Source artifact SHA-256: 7dda0b590f2736b7d30e48b97167a0868a2b4bde253589d8aff7929d01506ff9

Hash scope: pdftotext -layout text layer, parsed by extract/extract_target_validation.py

Inspected artifact

attributes.comparison.dataset_version
Offline replay of the screen
Context-only references
LLMs for Bayesian Optimization in Scientific Domains: Are We There Yet?

Original source ↗

Table 1, 'Claude 3.5 Sonnet backbone' block, row 'BDA-Rand', column 'Sanchez Down'

Version: Findings of the Association for Computational Linguistics: EMNLP 2025, pages 15482-15510
Retrieved: 2026-10-09T20:55:36Z

not individually reviewed

No individual claim review recorded

independent paper

Audit details

Field: attributes.comparison.dataset_version

Source artifact SHA-256: 7dda0b590f2736b7d30e48b97167a0868a2b4bde253589d8aff7929d01506ff9

Hash scope: pdftotext -layout text layer, parsed by extract/extract_target_validation.py

Inspected artifact

attributes.comparison.inputs
Phenotype description and the outcomes revealed in previous rounds, true or permuted
Context-only references
LLMs for Bayesian Optimization in Scientific Domains: Are We There Yet?

Original source ↗

Table 1, 'Claude 3.5 Sonnet backbone' block, row 'BDA-Rand', column 'Sanchez Down'

Version: Findings of the Association for Computational Linguistics: EMNLP 2025, pages 15482-15510
Retrieved: 2026-10-09T20:55:36Z

not individually reviewed

No individual claim review recorded

independent paper

Audit details

Field: attributes.comparison.inputs

Source artifact SHA-256: 7dda0b590f2736b7d30e48b97167a0868a2b4bde253589d8aff7929d01506ff9

Hash scope: pdftotext -layout text layer, parsed by extract/extract_target_validation.py

Inspected artifact

attributes.comparison.metric_implementation
Not reported
Context-only references
LLMs for Bayesian Optimization in Scientific Domains: Are We There Yet?

Original source ↗

Table 1, 'Claude 3.5 Sonnet backbone' block, row 'BDA-Rand', column 'Sanchez Down'

Version: Findings of the Association for Computational Linguistics: EMNLP 2025, pages 15482-15510
Retrieved: 2026-10-09T20:55:36Z

missing or unspecified

No individual claim review recorded

independent paper

Audit details

Field: attributes.comparison.metric_implementation

Source artifact SHA-256: 7dda0b590f2736b7d30e48b97167a0868a2b4bde253589d8aff7929d01506ff9

Hash scope: pdftotext -layout text layer, parsed by extract/extract_target_validation.py

Inspected artifact

attributes.comparison.population
Genes assayed by the Sanchez Down screen
Context-only references
LLMs for Bayesian Optimization in Scientific Domains: Are We There Yet?

Original source ↗

Table 1, 'Claude 3.5 Sonnet backbone' block, row 'BDA-Rand', column 'Sanchez Down'

Version: Findings of the Association for Computational Linguistics: EMNLP 2025, pages 15482-15510
Retrieved: 2026-10-09T20:55:36Z

not individually reviewed

No individual claim review recorded

independent paper

Audit details

Field: attributes.comparison.population

Source artifact SHA-256: 7dda0b590f2736b7d30e48b97167a0868a2b4bde253589d8aff7929d01506ff9

Hash scope: pdftotext -layout text layer, parsed by extract/extract_target_validation.py

Inspected artifact

attributes.comparison.protocol_id
tgtval-20261009-protocol-gupta2025-cumulative-hits-round5
Context-only references
LLMs for Bayesian Optimization in Scientific Domains: Are We There Yet?

Original source ↗

Table 1, 'Claude 3.5 Sonnet backbone' block, row 'BDA-Rand', column 'Sanchez Down'

Version: Findings of the Association for Computational Linguistics: EMNLP 2025, pages 15482-15510
Retrieved: 2026-10-09T20:55:36Z

not individually reviewed

No individual claim review recorded

independent paper

Audit details

Field: attributes.comparison.protocol_id

Source artifact SHA-256: 7dda0b590f2736b7d30e48b97167a0868a2b4bde253589d8aff7929d01506ff9

Hash scope: pdftotext -layout text layer, parsed by extract/extract_target_validation.py

Inspected artifact

attributes.comparison.split
No training split; 5 sequential selection rounds
Context-only references
LLMs for Bayesian Optimization in Scientific Domains: Are We There Yet?

Original source ↗

Table 1, 'Claude 3.5 Sonnet backbone' block, row 'BDA-Rand', column 'Sanchez Down'

Version: Findings of the Association for Computational Linguistics: EMNLP 2025, pages 15482-15510
Retrieved: 2026-10-09T20:55:36Z

not individually reviewed

No individual claim review recorded

independent paper

Audit details

Field: attributes.comparison.split

Source artifact SHA-256: 7dda0b590f2736b7d30e48b97167a0868a2b4bde253589d8aff7929d01506ff9

Hash scope: pdftotext -layout text layer, parsed by extract/extract_target_validation.py

Inspected artifact

attributes.origin
independent_paper
Context-only references
LLMs for Bayesian Optimization in Scientific Domains: Are We There Yet?

Original source ↗

Table 1, 'Claude 3.5 Sonnet backbone' block, row 'BDA-Rand', column 'Sanchez Down'

Version: Findings of the Association for Computational Linguistics: EMNLP 2025, pages 15482-15510
Retrieved: 2026-10-09T20:55:36Z

not individually reviewed

No individual claim review recorded

independent paper

Audit details

Field: attributes.origin

Source artifact SHA-256: 7dda0b590f2736b7d30e48b97167a0868a2b4bde253589d8aff7929d01506ff9

Hash scope: pdftotext -layout text layer, parsed by extract/extract_target_validation.py

Inspected artifact

Sources and history

Release 2026-10-10-6e93f504adfc · Record review: source checked

1 source records and release historyDownload this release (gzip)
Technical metadata and extraction receipts

Stable ID: tgtval-20261009-eval-gupta2025-bda-rand-claude-3-5-sonnet-sanchez2021-tau-down

areas
cells-tissues
contexts
research
origin
independent_paper
protocol
tgtval-20261009-protocol-gupta2025-cumulative-hits-round5
version
Primary source as retrieved 2026-10-09
comparison
protocol id: tgtval-20261009-protocol-gupta2025-cumulative-hits-round5; dataset version: Offline replay of the screen; split: No training split; 5 sequential selection rounds; population: Genes assayed by the Sanchez Down screen; inputs: Phenotype description and the outcomes revealed in previous rounds, true or permuted; adaptation: Selection only; metric implementation: Not reported; aggregation: Mean over 5 runs; budget: 5 rounds x 128 genes
source locator
Table 1, 'Claude 3.5 Sonnet backbone' block, row 'BDA-Rand', column 'Sanchez Down'
missing metadata
comparison.metric implementation: reason: unreported
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