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Large language models (LLMs) can standardize unstructured red cell antigen profiles, improving data for transfusion history services. Commercial LLMs achieved high accuracy, reducing manual curation needs.

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Area of Science:

  • Medical Informatics
  • Computational Biology
  • Bioinformatics

Background:

  • Standardized data is crucial for national transfusion history sharing services like the alloantibody exchange.
  • Red cell antigen profiles are often unstructured text, hindering data standardization.
  • Manual curation of antigen profiles is labor-intensive and limits scalability.

Purpose of the Study:

  • To evaluate the efficacy of large language models (LLMs) in standardizing unstructured free-text red cell antigen profiles.
  • To compare the performance of locally run open-weight LLMs versus commercially available LLMs accessed via the internet.
  • To assess the accuracy, scalability, and cost-effectiveness of LLM-based standardization for transfusion data.

Main Methods:

  • Utilized deidentified red cell antigen profiles from an academic center.
  • Employed schema-guided decoding and error-aware retries for LLM output.
  • Compared performance metrics including exact profile match, antigen-level agreement, error types, and processing costs.
  • Statistically analyzed differences using Cochran's Q and pairwise McNemar tests with Holm correction.

Main Results:

  • Commercial LLMs significantly outperformed open-source LLMs in standardizing antigen profiles.
  • The top-performing commercial LLM achieved 92.5% exact match for antigen profiles and 99.4% antigen-level agreement.
  • Open-source LLMs showed improved performance with a higher number of parameters.
  • Estimated API costs for commercial LLMs were modest for the evaluated workload.

Conclusions:

  • Commercial LLMs, when combined with schema-guided decoding and error-aware retries, can accurately standardize unstructured antigen profiles.
  • LLM-based standardization offers significant scalability and reduces manual curation efforts for transfusion history services.
  • LLMs represent a foundational technology for enabling efficient and accurate national transfusion history sharing.