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Evidence-based Knowledge Synthesis and Hypothesis Validation: Navigating Biomedical Knowledge Bases via Explainable AI and Agentic Systems
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Minimizing and quantifying uncertainty in AI-informed decisions: Applications in medicine.

Samuel D Curtis1,2,3,4,5, Sambit Panda6,7, Adam Li8

  • 1Department of Pharmacology and Molecular Sciences, Johns Hopkins University School of Medicine, Baltimore, MD 21205.

Proceedings of the National Academy of Sciences of the United States of America
|August 20, 2025
PubMed
Summary

Multidimensional Informed Generalized Hypothesis Testing (MIGHT) accurately quantifies AI prediction uncertainty and controls specific error types. This AI strategy can be trusted for real-world data analysis, unlike typical approaches.

Keywords:
biomarkersbiomedical assayscancer screeninghypothesis testingpredictive modeling

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Area of Science:

  • Artificial Intelligence
  • Biomedical Data Analysis
  • Statistical Learning

Background:

  • AI is crucial for data analysis, but controlling specific error types (e.g., false positives in screening) is challenging.
  • Quantifying uncertainty in AI predictions, especially for error control, presents theoretical and practical difficulties.

Purpose of the Study:

  • To develop a novel strategy for accurately quantifying AI prediction uncertainty.
  • To ensure reliable control over specific error types in AI-driven analyses.
  • To address the challenge of trusting AI-based findings in critical applications like biomedical screening.

Main Methods:

  • Introduced Multidimensional Informed Generalized Hypothesis Testing (MIGHT), a nonparametric ensemble method.
  • Integrated canonical cross-validation and parametric calibration within the MIGHT framework.
  • Validated MIGHT's performance through simulations and application to liquid biopsy data (ccfDNA).

Main Results:

  • MIGHT accurately quantifies uncertainty and confidence with theoretical guarantees, outperforming typical AI approaches.
  • MIGHT demonstrated significantly lower coefficients of variation and often higher sensitivity on ccfDNA data compared to SVM, random forests, and Transformers.
  • Found that combining variable sets can decrease sensitivity due to increased noise, highlighting the importance of optimal variable selection.

Conclusions:

  • MIGHT provides a trustworthy method for AI-based data analysis, particularly when controlling specific error types is critical.
  • The study emphasizes the necessity of quantifying uncertainty and confidence with theoretical guarantees for reliable interpretation of real-world data.
  • MIGHT offers a robust solution for biomarker discovery and validation in liquid biopsies, addressing an open question in cancer detection.