mlsanityData to 14 Oct 2026

OwkinZero: Accelerating Biological Discovery with AI

arXiv 2508.16315 ↗First posted 22 Aug 2025cs.LGcited by 4

On the map: LLM reasoning → Clinical and biomedical applications

Abstract (arXiv)

While large language models (LLMs) are rapidly advancing scientific research, they continue to struggle with core biological reasoning tasks essential for translational and biomedical discovery. To address this limitation, we created and curated eight comprehensive benchmark datasets comprising over 300,000 verifiable question-and-answer pairs, each targeting critical challenges in drug discovery including target druggability, modality suitability, and drug perturbation effects. Using this resource, we developed the OwkinZero models by post-training open-source LLMs through a Reinforcement Learning from Verifiable Rewards strategy. Our results demonstrate that specialized 8-32B OwkinZero models substantially outperform larger, state-of-the-art commercial LLMs on these biological benchmarks. Remarkably, we uncover evidence of a key aspect of generalization: specialist models trained on a single task consistently outperform their base models on previously unseen tasks. This generalization effect is further amplified in our comprehensive OwkinZero models, which were trained on a mixture of datasets and achieve even broader cross-task improvements. This study represents a significant step toward addressing the biological reasoning blind spot in current LLMs, demonstrating that targeted reinforcement learning on carefully curated data can unlock generalizable performance in specialized models, thereby accelerating AI-driven biological discovery.

Key facts. Cited by 4 papers in the map (data through 14 Oct 2026). Placed in Clinical and biomedical applications, one of 17 directions in LLM reasoning. Builds on 17 of its 51 references that are in the map. First posted on arXiv 22 Aug 2025.

Builds on

17 of 51 references.

Closest ancestors · 2

Same direction, newest first

  1. 2025Training a Scientific Reasoning Model for Chemistry4 Jun
  2. 2025BioMaze: Benchmarking and Enhancing Large Language Models for Biological Pathway Reasoning23 Feb

Other references · 15

  1. 2022Chain-of-Thought Prompting Elicits Reasoning in Large Language Modelscited by 12,459
  2. 2024DeepSeekMath: Pushing the Limits of Mathematical Reasoning in Open Language Modelscited by 9,379
  3. 2025DeepSeek-R1: Incentivizing Reasoning Capability in LLMs via Reinforcement Learningcited by 6,330
  4. 2025DAPO: An Open-Source LLM Reinforcement Learning System at Scalecited by 2,810
  5. 2024Scaling LLM Test-Time Compute Optimally can be More Effective than Scaling Model Parameterscited by 1,986
  6. 2025Search-R1: Training LLMs to Reason and Leverage Search Engines with Reinforcement Learningcited by 1,444
  7. 2025Understanding R1-Zero-Like Training: A Critical Perspectivecited by 1,345
  8. 2023Language Models Don't Always Say What They Think: Unfaithful Explanations in Chain-of-Thought Promptingcited by 1,122
  9. 2025Open-Reasoner-Zero: An Open Source Approach to Scaling Up Reinforcement Learning on the Base Modelcited by 461
  10. 2025Accelerating scientific discovery with Co-Scientistcited by 401
  11. 2024LAB-Bench: Measuring Capabilities of Language Models for Biology Researchcited by 156
  12. 2024Making Reasoning Matter: Measuring and Improving Faithfulness of Chain-of-Thought Reasoningcited by 110
3 more
  1. 2024How to Build the Virtual Cell with Artificial Intelligence: Priorities and Opportunitiescited by 57
  2. 2025TxGemma: Efficient and Agentic LLMs for Therapeuticscited by 41
  3. 2025TxPert: Leveraging Biochemical Relationships for Out-of-Distribution Transcriptomic Perturbation Predictioncited by 9

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Cited by year (2026 to 14 Oct)

Citing papers per year: 2025: 1; 2026: 3.

4 papers.

Similar, not cited

Close in wording, no citation either way

  1. 2026MMAI Gym for Science: Training Liquid Foundation Models for Drug Discovery
  2. 2026Evaluating the Progression of Large Language Model Capabilities for Small-Molecule Drug Design
  3. 2025DrugPilot: LLM-based Parameterized Reasoning Agent for Drug Discovery
  4. 2026DrugPlayGround: Benchmarking Large Language Models and Embeddings for Drug Discovery
  5. 2025Large Language Model Agent for Modular Task Execution in Drug Discovery
  6. 2025BioMedGPT-Mol: Multi-task Learning for Molecular Understanding and Generation
  7. 2025REINFORCE-ING Chemical Language Models for Drug Discovery
  8. 2025Can AI Agents Design and Implement Drug Discovery Pipelines?