rewirebio.iobenchmarks
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BDA (Reported Numbers), claude-3-5-sonnet backbone (Gupta et al. 2025)

BDA (Reported Numbers), claude-3-5-sonnet backbone: No-Tool variant; values copied from Roohani et al 2025 rather than re-run.

5 evaluations · 5 results

Overview

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Consult the linked sources for architecture or protocol details. Missing evidence is not evidence of a missing capability.

Evaluations and results

5 evaluations · 5 results. Different protocols are not a single leaderboard.

Protocol: Independent replication of 1-gene perturbation design: cumulative hits after 5 rounds of 128 genes

Sorted by True positives (cumulative hits after round 5; mean of 5 runs) (higher is better). The best value in each column is highlighted. Decimals are rounded for display; each value links to the printed value and its source.

All 5 result rows with coverage, uncertainty and sources
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Exact evaluated configurations and original reported results
Tested configurationProtocol and datasetFindingEvidence and details
Configuration: BDA (Reported Numbers), 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: Carnevale et al. 2022 screen, T-cell resistance to tumour-microenvironment inhibitory signals
39.6 True positives (cumulative hits after round 5; mean of 5 runs)
count · higher

Uncertainty: Not reported by the source

Coverage: Not reported scored / Not reported eligible

Result quoted from another source · Source checked
Methods, coverage and source

BDA (Reported Numbers) (Claude 3.5 Sonnet backbone) on Carnevale (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 (Reported Numbers)', column 'Carnevale'
Configuration: BDA (Reported Numbers), 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
N/A True positives (cumulative hits after round 5; mean of 5 runs)
count · higher

Uncertainty: Not reported by the source

Coverage: Not reported scored / Not reported eligible

Result quoted from another source · Source checked
Methods, coverage and source

BDA (Reported Numbers) (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 (Reported Numbers)', column 'Sanchez Down'
Configuration: BDA (Reported Numbers), 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, endogenous tau protein level in neurons
60.7 True positives (cumulative hits after round 5; mean of 5 runs)
count · higher

Uncertainty: Not reported by the source

Coverage: Not reported scored / Not reported eligible

Result quoted from another source · Source checked
Methods, coverage and source

BDA (Reported Numbers) (Claude 3.5 Sonnet backbone) on Sanchez (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 (Reported Numbers)', column 'Sanchez'
Configuration: BDA (Reported Numbers), 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: Schmidt et al. 2022 screen, interferon-gamma production in primary human T cells
87.4 True positives (cumulative hits after round 5; mean of 5 runs)
count · higher

Uncertainty: Not reported by the source

Coverage: Not reported scored / Not reported eligible

Result quoted from another source · Source checked
Methods, coverage and source

BDA (Reported Numbers) (Claude 3.5 Sonnet backbone) on IFNG (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 (Reported Numbers)', column 'IFNG'
Configuration: BDA (Reported Numbers), 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: Schmidt et al. 2022 screen, interleukin-2 production in primary human T cells
68 True positives (cumulative hits after round 5; mean of 5 runs)
count · higher

Uncertainty: Not reported by the source

Coverage: Not reported scored / Not reported eligible

Result quoted from another source · Source checked
Methods, coverage and source

BDA (Reported Numbers) (Claude 3.5 Sonnet backbone) on IL2 (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 (Reported Numbers)', column 'IL2'

Source checking is not independent reproduction. Release 2026-11-02-a7f03c9e55a5.

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Evidence

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Evidence table

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Claims, original sources and review scope · Release 2026-11-02-a7f03c9e55a5
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Sources and history

Release 2026-11-02-a7f03c9e55a5 · Record review: source checked

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Technical metadata and extraction receipts

Stable ID: tgtval-20261009-config-gupta2025-bda-reported-numbers-claude-3-5-sonnet

areas
cells-tissues
contexts
research
method types
foundation_model
reported name
BDA (Reported Numbers)
foundation model eligible
true
source locator
Table 1, 'Claude 3.5 Sonnet backbone' block
missing metadata
version: reason: unreported; note: No release or commit is printed for this configuration
parameters
No-Tool variant; values copied from Roohani et al. 2025 rather than re-run
limitations
Copied from the original paper, not re-run by this source.
provenance note
Configuration as run in the cited comparison.
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