Taming the Real-world Complexities in CPT E/M Coding with Large Language Models

Islam Nassar, Yang Lin, Yuan Jin, Rongxin Zhu, Chang Wei Tan, Zenan Zhai, Nitika Mathur, Thanh Tien Vu, Xu Zhong, Long Duong, Yuan-Fang Li


Abstract
Evaluation and Management (E/M) coding, under the Current Procedural Terminology (CPT) taxonomy, documents medical services provided to patients by physicians. Used primarily for billing purposes, it is in physicians’ best interest to provide accurate CPT E/M codes. Automating this coding task will help alleviate physicians’ documentation burden, improve billing efficiency, and ultimately enable better patient care. However, a number of real-world complexities have made E/M encoding automation a challenging task. In this paper, we elaborate some of the key complexities and present ProFees, our LLM-based framework that tackles them, followed by a systematic evaluation. On an expert-curated real-world dataset, ProFees achieves an increase in coding accuracy of more than 36% over a commercial CPT E/M coding system and almost 5% over our strongest single-prompt baseline, demonstrating its effectiveness in addressing the real-world complexities.
Anthology ID:
2025.emnlp-industry.84
Volume:
Proceedings of the 2025 Conference on Empirical Methods in Natural Language Processing: Industry Track
Month:
November
Year:
2025
Address:
Suzhou (China)
Editors:
Saloni Potdar, Lina Rojas-Barahona, Sebastien Montella
Venue:
EMNLP
SIG:
Publisher:
Association for Computational Linguistics
Note:
Pages:
1212–1226
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URL:
https://preview.aclanthology.org/ingest-emnlp/2025.emnlp-industry.84/
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Bibkey:
Cite (ACL):
Islam Nassar, Yang Lin, Yuan Jin, Rongxin Zhu, Chang Wei Tan, Zenan Zhai, Nitika Mathur, Thanh Tien Vu, Xu Zhong, Long Duong, and Yuan-Fang Li. 2025. Taming the Real-world Complexities in CPT E/M Coding with Large Language Models. In Proceedings of the 2025 Conference on Empirical Methods in Natural Language Processing: Industry Track, pages 1212–1226, Suzhou (China). Association for Computational Linguistics.
Cite (Informal):
Taming the Real-world Complexities in CPT E/M Coding with Large Language Models (Nassar et al., EMNLP 2025)
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https://preview.aclanthology.org/ingest-emnlp/2025.emnlp-industry.84.pdf