Configuration

BioDiscoveryAgent (No-Tools), Claude v1 (Roohani et al. 2025)

BioDiscoveryAgent (No-Tools), Claude v1: No-Tools variant: no literature search, gene search or critic tool.

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

6 evaluations · 12 results. Different protocols are not a single leaderboard.

Protocol: BioDiscoveryAgent 1-gene perturbation design: hit ratio after 5 rounds of 128 genes

Sorted by Recall (hit ratio after round 5, all genes; mean of 10 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.

Tested configuration	Protocol and dataset	Recall (hit ratio after round 5, all genes; mean of 10 runs)	Recall (hit ratio after round 5, non-essential genes only; mean of 10 runs)
BioDiscoveryAgent (No-Tools), Claude v1 (Roohani et al. 2025)Evaluation	Scharenberg et al. 2023 screen, lysosomal choline recycling in pancreatic cells	0.292 (best in column)	0.222 (best in column)
BioDiscoveryAgent (No-Tools), Claude v1 (Roohani et al. 2025)Evaluation	CAR-T proliferation screen (unpublished dataset used by Roohani et al. 2025)	0.11	0.126
BioDiscoveryAgent (No-Tools), Claude v1 (Roohani et al. 2025)Evaluation	Schmidt et al. 2022 screen, interleukin-2 production in primary human T cells	0.089	0.11
BioDiscoveryAgent (No-Tools), Claude v1 (Roohani et al. 2025)Evaluation	Schmidt et al. 2022 screen, interferon-gamma production in primary human T cells	0.067	0.086
BioDiscoveryAgent (No-Tools), Claude v1 (Roohani et al. 2025)Evaluation	Sanchez et al. 2021 screen, endogenous tau protein level in neurons	0.053	0.055
BioDiscoveryAgent (No-Tools), Claude v1 (Roohani et al. 2025)Evaluation	Carnevale et al. 2022 screen, T-cell resistance to tumour-microenvironment inhibitory signals	0.038	0.045

All 12 result rows with coverage, uncertainty and sources

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Exact evaluated configurations and original reported results
Tested configuration	Protocol and dataset	Finding	Evidence and details
Configuration: BioDiscoveryAgent (No-Tools), Claude v1 (Roohani et al. 2025)	Protocol: BioDiscoveryAgent 1-gene perturbation design: hit ratio after 5 rounds of 128 genes Dataset: Carnevale et al. 2022 screen, T-cell resistance to tumour-microenvironment inhibitory signals	0.038 Recall (hit ratio after round 5, all genes; mean of 10 runs) fraction · higher Uncertainty: Not yet extracted: Appendix Table 7 prints one standard deviation over 10 runs for these values; not extracted in this pass. Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source Claude v1 on Carnev. (Roohani et al. 2025) tgtval-20261009-protocol-roohani2025-hitratio-round5 Aggregation: Not reported BioDiscoveryAgent: An AI Agent for Designing Genetic Perturbation Experiments · Table 1, row 'Claude v1', column 'All' under 'Carnev.'
Configuration: BioDiscoveryAgent (No-Tools), Claude v1 (Roohani et al. 2025)	Protocol: BioDiscoveryAgent 1-gene perturbation design: hit ratio after 5 rounds of 128 genes Dataset: Carnevale et al. 2022 screen, T-cell resistance to tumour-microenvironment inhibitory signals	0.045 Recall (hit ratio after round 5, non-essential genes only; mean of 10 runs) fraction · higher Uncertainty: Not yet extracted: Appendix Table 7 prints one standard deviation over 10 runs for these values; not extracted in this pass. Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source Claude v1 on Carnev. (Roohani et al. 2025) tgtval-20261009-protocol-roohani2025-hitratio-round5 Aggregation: Not reported BioDiscoveryAgent: An AI Agent for Designing Genetic Perturbation Experiments · Table 1, row 'Claude v1', column 'N/E' under 'Carnev.'
Configuration: BioDiscoveryAgent (No-Tools), Claude v1 (Roohani et al. 2025)	Protocol: BioDiscoveryAgent 1-gene perturbation design: hit ratio after 5 rounds of 128 genes Dataset: CAR-T proliferation screen (unpublished dataset used by Roohani et al. 2025)	0.11 Recall (hit ratio after round 5, all genes; mean of 10 runs) fraction · higher Uncertainty: Not yet extracted: Appendix Table 7 prints one standard deviation over 10 runs for these values; not extracted in this pass. Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source Claude v1 on CAR-T (Roohani et al. 2025) tgtval-20261009-protocol-roohani2025-hitratio-round5 Aggregation: Not reported BioDiscoveryAgent: An AI Agent for Designing Genetic Perturbation Experiments · Table 1, row 'Claude v1', column 'All' under 'CAR-T'
Configuration: BioDiscoveryAgent (No-Tools), Claude v1 (Roohani et al. 2025)	Protocol: BioDiscoveryAgent 1-gene perturbation design: hit ratio after 5 rounds of 128 genes Dataset: CAR-T proliferation screen (unpublished dataset used by Roohani et al. 2025)	0.126 Recall (hit ratio after round 5, non-essential genes only; mean of 10 runs) fraction · higher Uncertainty: Not yet extracted: Appendix Table 7 prints one standard deviation over 10 runs for these values; not extracted in this pass. Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source Claude v1 on CAR-T (Roohani et al. 2025) tgtval-20261009-protocol-roohani2025-hitratio-round5 Aggregation: Not reported BioDiscoveryAgent: An AI Agent for Designing Genetic Perturbation Experiments · Table 1, row 'Claude v1', column 'N/E' under 'CAR-T'
Configuration: BioDiscoveryAgent (No-Tools), Claude v1 (Roohani et al. 2025)	Protocol: BioDiscoveryAgent 1-gene perturbation design: hit ratio after 5 rounds of 128 genes Dataset: Sanchez et al. 2021 screen, endogenous tau protein level in neurons	0.053 Recall (hit ratio after round 5, all genes; mean of 10 runs) fraction · higher Uncertainty: Not yet extracted: Appendix Table 7 prints one standard deviation over 10 runs for these values; not extracted in this pass. Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source Claude v1 on Sanchez (Roohani et al. 2025) tgtval-20261009-protocol-roohani2025-hitratio-round5 Aggregation: Not reported BioDiscoveryAgent: An AI Agent for Designing Genetic Perturbation Experiments · Table 1, row 'Claude v1', column 'All' under 'Sanchez'
Configuration: BioDiscoveryAgent (No-Tools), Claude v1 (Roohani et al. 2025)	Protocol: BioDiscoveryAgent 1-gene perturbation design: hit ratio after 5 rounds of 128 genes Dataset: Sanchez et al. 2021 screen, endogenous tau protein level in neurons	0.055 Recall (hit ratio after round 5, non-essential genes only; mean of 10 runs) fraction · higher Uncertainty: Not yet extracted: Appendix Table 7 prints one standard deviation over 10 runs for these values; not extracted in this pass. Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source Claude v1 on Sanchez (Roohani et al. 2025) tgtval-20261009-protocol-roohani2025-hitratio-round5 Aggregation: Not reported BioDiscoveryAgent: An AI Agent for Designing Genetic Perturbation Experiments · Table 1, row 'Claude v1', column 'N/E' under 'Sanchez'
Configuration: BioDiscoveryAgent (No-Tools), Claude v1 (Roohani et al. 2025)	Protocol: BioDiscoveryAgent 1-gene perturbation design: hit ratio after 5 rounds of 128 genes Dataset: Scharenberg et al. 2023 screen, lysosomal choline recycling in pancreatic cells	0.292 Recall (hit ratio after round 5, all genes; mean of 10 runs) fraction · higher Uncertainty: Not yet extracted: Appendix Table 7 prints one standard deviation over 10 runs for these values; not extracted in this pass. Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source Claude v1 on Scharen. (Roohani et al. 2025) tgtval-20261009-protocol-roohani2025-hitratio-round5 Aggregation: Not reported BioDiscoveryAgent: An AI Agent for Designing Genetic Perturbation Experiments · Table 1, row 'Claude v1', column 'All' under 'Scharen.'
Configuration: BioDiscoveryAgent (No-Tools), Claude v1 (Roohani et al. 2025)	Protocol: BioDiscoveryAgent 1-gene perturbation design: hit ratio after 5 rounds of 128 genes Dataset: Scharenberg et al. 2023 screen, lysosomal choline recycling in pancreatic cells	0.222 Recall (hit ratio after round 5, non-essential genes only; mean of 10 runs) fraction · higher Uncertainty: Not yet extracted: Appendix Table 7 prints one standard deviation over 10 runs for these values; not extracted in this pass. Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source Claude v1 on Scharen. (Roohani et al. 2025) tgtval-20261009-protocol-roohani2025-hitratio-round5 Aggregation: Not reported BioDiscoveryAgent: An AI Agent for Designing Genetic Perturbation Experiments · Table 1, row 'Claude v1', column 'N/E' under 'Scharen.'
Configuration: BioDiscoveryAgent (No-Tools), Claude v1 (Roohani et al. 2025)	Protocol: BioDiscoveryAgent 1-gene perturbation design: hit ratio after 5 rounds of 128 genes Dataset: Schmidt et al. 2022 screen, interferon-gamma production in primary human T cells	0.067 Recall (hit ratio after round 5, all genes; mean of 10 runs) fraction · higher Uncertainty: Not yet extracted: Appendix Table 7 prints one standard deviation over 10 runs for these values; not extracted in this pass. Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source Claude v1 on Schmidt1 (Roohani et al. 2025) tgtval-20261009-protocol-roohani2025-hitratio-round5 Aggregation: Not reported BioDiscoveryAgent: An AI Agent for Designing Genetic Perturbation Experiments · Table 1, row 'Claude v1', column 'All' under 'Schmidt1'
Configuration: BioDiscoveryAgent (No-Tools), Claude v1 (Roohani et al. 2025)	Protocol: BioDiscoveryAgent 1-gene perturbation design: hit ratio after 5 rounds of 128 genes Dataset: Schmidt et al. 2022 screen, interferon-gamma production in primary human T cells	0.086 Recall (hit ratio after round 5, non-essential genes only; mean of 10 runs) fraction · higher Uncertainty: Not yet extracted: Appendix Table 7 prints one standard deviation over 10 runs for these values; not extracted in this pass. Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source Claude v1 on Schmidt1 (Roohani et al. 2025) tgtval-20261009-protocol-roohani2025-hitratio-round5 Aggregation: Not reported BioDiscoveryAgent: An AI Agent for Designing Genetic Perturbation Experiments · Table 1, row 'Claude v1', column 'N/E' under 'Schmidt1'
Configuration: BioDiscoveryAgent (No-Tools), Claude v1 (Roohani et al. 2025)	Protocol: BioDiscoveryAgent 1-gene perturbation design: hit ratio after 5 rounds of 128 genes Dataset: Schmidt et al. 2022 screen, interleukin-2 production in primary human T cells	0.089 Recall (hit ratio after round 5, all genes; mean of 10 runs) fraction · higher Uncertainty: Not yet extracted: Appendix Table 7 prints one standard deviation over 10 runs for these values; not extracted in this pass. Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source Claude v1 on Schmidt2 (Roohani et al. 2025) tgtval-20261009-protocol-roohani2025-hitratio-round5 Aggregation: Not reported BioDiscoveryAgent: An AI Agent for Designing Genetic Perturbation Experiments · Table 1, row 'Claude v1', column 'All' under 'Schmidt2'
Configuration: BioDiscoveryAgent (No-Tools), Claude v1 (Roohani et al. 2025)	Protocol: BioDiscoveryAgent 1-gene perturbation design: hit ratio after 5 rounds of 128 genes Dataset: Schmidt et al. 2022 screen, interleukin-2 production in primary human T cells	0.11 Recall (hit ratio after round 5, non-essential genes only; mean of 10 runs) fraction · higher Uncertainty: Not yet extracted: Appendix Table 7 prints one standard deviation over 10 runs for these values; not extracted in this pass. Coverage: Not reported scored / Not reported eligible	Author-reported evaluation · Source checked Methods, coverage and source Claude v1 on Schmidt2 (Roohani et al. 2025) tgtval-20261009-protocol-roohani2025-hitratio-round5 Aggregation: Not reported BioDiscoveryAgent: An AI Agent for Designing Genetic Perturbation Experiments · Table 1, row 'Claude v1', column 'N/E' under 'Schmidt2'

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BioDiscoveryAgent: An AI Agent for Designing Genetic Perturbation Experiments · Original source · arXiv:2405.17631 version 3, updated 2025-03-09; published as a conference paper at ICLR 2025

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Technical metadata and extraction receipts

Stable ID: tgtval-20261009-config-roohani2025-claude-v1

areas: cells-tissues
contexts: research
method types: foundation_model
reported name: Claude v1
foundation model eligible: true
source locator: Table 1, BioDiscoveryAgent (No-Tools) block
missing metadata: version: reason: unreported; note: No release or commit is printed for this configuration
parameters: No-Tools variant: no literature search, gene search or critic tool
provenance note: Configuration as run in the cited comparison.

Related records

configuration of: BioDiscoveryAgent
uses model: Claude v1
system: Claude v1 on Carnev. (Roohani et al. 2025)
system: Claude v1 on CAR-T (Roohani et al. 2025)
system: Claude v1 on Sanchez (Roohani et al. 2025)
system: Claude v1 on Scharen. (Roohani et al. 2025)
system: Claude v1 on Schmidt1 (Roohani et al. 2025)
system: Claude v1 on Schmidt2 (Roohani et al. 2025)

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