arXiv Machine Learning

Cite What You Explore: Budget-Aware LLM Reasoning over Medical KGs with Verifiable Evidence

The paper introduces BAR, a Budget‑Aware LLM Reasoning framework that enhances post‑discharge risk prediction by integrating external medical knowledge graphs (KGs). BAR refines KGs into disease‑specific evidence graphs with support scores and provenance, then uses an LLM to plan, navigate, and verify evidence within a patient‑specific budget. Experiments on MIMIC‑III and MIMIC‑IV across eight diseases show BAR improves AUPRC by 3.4 points, raises citation precision from 59.8% to 77.9%, and uses only 62‑65% of the allotted budget.

arXiv AI
Jun 30

An AI agent for treatment reasoning over a biomedical tool universe

arXiv:2606. 28692v1 Announce Type: new Abstract: Treatment reasoning underpins every therapeutic decision, integrating disease context, comorbidities, medications, contraindications, and evolving biomedical knowledge to select an appropriate therapy.

By Shanghua Gao, Ayush Noori, Richard Zhu, Curtis Ginder, Zhenglun Kong, Xiaorui Su, Justin Kauffman, Benjamin S. Glicksberg, Joshua Lampert, Ankit Sakhuja, Ashwin Sawant, ATHENA-R1 Evaluation Consortium, David A. Clifton, Noa Dagan, Ran Balicer, Marinka Zitnik
arXiv AI
Aug 25

Teaching LLMs How ICU Physicians Approach Clinical Reasoning Through OMOP-Aligned Retrieval Improves Reasoning Across Clinical Domains

arXiv:2608.22622v1 Announce Type: cross Abstract: Clinical decision-making relies on identifying relevant patient information to guide diagnosis and treatment, a challenge that is especially difficul...

By Miguel Contreras, Scott Siegel, Subhash Nerella, Jessica Sena, Jiaqing Zhang, Heng Sun, Hruday Tej Akkaladevi, Peiyu Lu, Jordan Rosen, Sumit Kapoor, Sasank Desaraju, Grace R. Thompson, Jacob Purcell, Michael Petrauskis, Philip KW. Hong, Meghan Brennan, Sarah Chrabaszcz, Tierra Smith, Ronnie Ren, Michel S. Kabbash, Ceyhun Haziroglu, Rushi Patel, Gabriel Gomez, Charlotte Chaiklin, Randy Leung, Kenneth N. John, Whitman Wiggins, Philip Kayser, Vincent Bird, Maria Bruzzone, Tyler J. Loftus, Azra Bihorac, Parisa Rashidi
arXiv Machine Learning
Jun 2

OncoReason: Structuring Clinical Reasoning in LLMs for Robust and Interpretable Survival Prediction

arXiv:2510. 17532v2 Announce Type: replace-cross Abstract: Predicting cancer treatment outcomes requires models that are both accurate and interpretable, particularly in the presence of heterogeneous clinical data.

By Raghu Vamshi Hemadri, Geetha Krishna Guruju, Kristi Topollai, Anna Ewa Choromanska
arXiv AI
Sep 2

Medical Causal Hypothesis Verification with Large Language Models

The paper "Medical Causal Hypothesis Verification with Large Language Models" reports a small-scale study evaluating eight LLMs on 17 medical causal hypotheses. The authors introduce an evaluation framework and annotate 1,067 evidence points across six criteria, using nine metrics to assess performance. Results show that while LLMs have strong recall, they frequently fail to provide valid scientific articles, evidence, or reject unsupported hypotheses, revealing a critical limitation for their use in healthcare.

By Safiyyah Ahmed, Abrar Ansari, Md Aminul Islam, Elena Zheleva
arXiv Computation and Language
Sep 23

Quantitative Evidence Mining for Plausibility-Aware Biomedical AI: A Narrative Review and Conceptual Framework

The article proposes a framework called quantitative evidence mining to transform biomedical findings into structured, context-rich evidence units. It outlines core elements such as claim, measured entity, value, comparator, population, conditions, temporal context, uncertainty, provenance, validation, and expert review. The authors present an eight-stage reference architecture and emphasize that plausibility should remain multidimensional rather than collapsed into a single truth label, linking extraction to evidence synthesis for applications like clinical trials, biomarker research, and knowledge-graph construction.

By Negin Sadat Babaiha, Stefan Geissler, Marie-Christine Simon, Martin Hofmann-Apitius, Marc Jacobs
arXiv AI
Jul 24

A Knowledge-Injection Framework for Zero-Shot Adaptation of LLMs to Delirium Prediction

arXiv:2607. 20453v1 Announce Type: cross Abstract: Large language models show promise for clinical prediction, but zero-shot performance on specialized tasks is limited by incomplete domain knowledge, especially for smaller locally deployable models.

By Jessica Sena, Shesadree Priyadarshani, Miguel Contreras, Bharat Gandhi, Scott Siegel, Subhash Nerella, Parisa Rashidi