Accessibility settings

This paper is in the following e-collection/theme issue:

Development and Evaluation of Research Methods, Instruments and Tools (1218) Natural Language Processing (1206) Electronic Health Records (1629) Innovations and Technology in Cancer Research (74) Methods in Cancer Research (86) Generative Language Models Including ChatGPT (1370)

Published on in Vol 9 (2025)

Preprints (earlier versions) of this paper are available at https://preprints.jmir.org/preprint/64544, first published .
Doctor typing on laptop with stethoscope on desk

Using Large Language Models to Automate Data Extraction From Surgical Pathology Reports: Retrospective Cohort Study

Using Large Language Models to Automate Data Extraction From Surgical Pathology Reports: Retrospective Cohort Study

Authors of this article:

Denise Lee1 Author Orcid Image ;   Akhil Vaid2 Author Orcid Image ;   Kartikeya M Menon1 Author Orcid Image ;   Robert Freeman2 Author Orcid Image ;   David S Matteson3 Author Orcid Image ;   Michael L Marin1 Author Orcid Image ;   Girish N Nadkarni2 Author Orcid Image
Article Authors Cited by (15) Tweetations Metrics

Journals

  1. Zou L, Zhang P, Jiang Y, Wang X, Yan X, Wu J, Qi J, Li W, Cai Q, Xuan Z, Hu K. ChatGPT-4o, Gemini Advanced and DeepSeek R1 in preoperative decision-making for thyroid surgery: a comparative assessment with human surgeons. Frontiers in Oncology 2025;15 View
  2. Kim B, Ahn J, Kang J, Hah J. Applications of Generative AI in the Field of Thyroidology: a Narrative Review. International Journal of Thyroidology 2025;18(2):124 View
  3. Ismayilov R, Aktas A, Gencoglu E, Oguz A, Altundag O, Akcali Z. Staging Prostate Cancer with AI: A Comparative Study of Large Language Models and Expert Interpretation on PSMA PET-CT Reports. Molecular Imaging and Biology 2026;28(1):93 View
  4. May P, Greß J, Seidel C, Sommer S, Schuler M, Nokodian S, Schröder F, Jung J. Enabling Just-in-Time Clinical Oncology Analysis With Large Language Models: Feasibility and Validation Study Using Unstructured Synthetic Data. JMIR Medical Informatics 2025;13:e78332 View
  5. Xu K, Xu Y, Shi Q. Harnessing computational power for intelligent oncology in the age of large models: Status, challenges, and prospects. Intelligent Oncology 2026;2(1):100038 View
  6. Xie F, Lee M, Chen W, Phan D. Converting unstructured cardiac catheterization and echocardiography reports into structured data using transformer-based language models. JAMIA Open 2026;9(2) View
  7. Teterycz P, Rynkun S, Szostakowski B, Wągrodzki M, Rutkowski P, Rosińska M. Accelerating real-world data collection using large language models in rare neoplasms: a bone sarcoma example. ESMO Real World Data and Digital Oncology 2026;12:100705 View
  8. Wang C, Wang L, Zhang X, Qi H. The Influencing Factors of Medical Postgraduates’ Usage Intention Toward Artificial Intelligence–Generated Content Tools in Academic Research: Qualitative Analysis. Journal of Medical Internet Research 2026;28:e77928 View
  9. Liang J, Xing M, Xiang P, Wang G, Chen M, Fang Q, Zhou T, Lu Z, Leng X, Huang J, Jiao X, Tian C, Lei J. A multicenter multifunctional assessment of large language models in pure-tone audiogram interpretation for patients. npj Digital Medicine 2026;9(1) View
  10. Fan Z, Liang R, Sun C, Pan J, Terry R, Xu J. Multimodal Prediction of Renal Tumor Malignancy From Radiology Reports and Structured Electronic Health Records: Retrospective Cohort Study. JMIR Medical Informatics 2026;14:e84396 View
  11. Chow N, Chang H, Chen H, Lin C, Liu Y, Tseng P, Shiu L, Chu Y, Chung P, Chang K. Digital Registrar: A Schema-First Framework for Multi-Cancer Privacy-Preserving Pathology Abstraction via Local LLMs. Diagnostics 2026;16(11):1644 View
  12. Lee D, Yen S, Smits G, Matteson D, Cohen N, Klang E, Nadkarni G, Marin M. Use of AI agents to assess preoperative frailty in cancer patients. npj Digital Surgery 2026;1(1) View
  13. Ntinopoulos V, Rodriguez Cetina Biefer H, Rings L, Rosalia R, Dzemali O. Open-source large language model-based on-premises pipeline for automated data extraction from unstructured electronic health records: a pilot study. BMJ Health & Care Informatics 2026;33(1):e101956 View
  14. V M M. Large Language Model Morphology-to-Genotype Inference for Microsatellite Instability From Colorectal Carcinoma Histopathology Reports. Cureus 2026 View
  15. Shujaat S, Gopinathan Pillai A, Riaz M, Alharbi W, Ganganna K, Alfadley A, Aboalela A, Abolemaaty W. Diagnostic Performance of Contemporary Large Language Models on Free-Text Histopathologic Descriptions in Oral and Maxillofacial Pathology. Head and Neck Pathology 2026;20(1) View