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

Artificial Intelligence (2162) Natural Language Processing (923) Ontologies, Classifications, and Coding (332) Machine Learning (2095) Pathology and Laboratory Medicine (31) Innovations in Cancer Diagnostic and Decision Support (113) Clinical Information and Decision Making (1935)

Published on in Vol 24, No 3 (2022): March

Preprints (earlier versions) of this paper are available at https://preprints.jmir.org/preprint/27210, first published .
A Question-and-Answer System to Extract Data From Free-Text Oncological Pathology Reports (CancerBERT Network): Development Study

A Question-and-Answer System to Extract Data From Free-Text Oncological Pathology Reports (CancerBERT Network): Development Study

A Question-and-Answer System to Extract Data From Free-Text Oncological Pathology Reports (CancerBERT Network): Development Study

Authors of this article:

Joseph Ross Mitchell1, 2, 3 Author Orcid Image ;   Phillip Szepietowski4 Author Orcid Image ;   Rachel Howard4 Author Orcid Image ;   Phillip Reisman4 Author Orcid Image ;   Jennie D Jones4 Author Orcid Image ;   Patricia Lewis4 Author Orcid Image ;   Brooke L Fridley5 Author Orcid Image ;   Dana E Rollison4 Author Orcid Image
Article Authors Cited by (25) Tweetations (9) Metrics

Journals

  1. Sim J, Huang X, Horan M, Baker J, Huang I. Using natural language processing to analyze unstructured patient-reported outcomes data derived from electronic health records for cancer populations: a systematic review. Expert Review of Pharmacoeconomics & Outcomes Research 2024;24(4):467 View
  2. Yang T, Sucholutsky I, Jen K, Schonlau M. exKidneyBERT: a language model for kidney transplant pathology reports and the crucial role of extended vocabularies. PeerJ Computer Science 2024;10:e1888 View
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  9. Chen Y, Zhang C, Bai R, Sun T, Ding W, Wang R. A review of medical text analysis: Theory and practice. Information Fusion 2025;119:103024 View
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  11. Chen D, Alnassar S, Avison K, Huang R, Raman S. Large Language Model Applications for Health Information Extraction in Oncology: Scoping Review. JMIR Cancer 2025;11:e65984 View
  12. Lee D, Vaid A, Menon K, Freeman R, Matteson D, Marin M, Nadkarni G. Using Large Language Models to Automate Data Extraction From Surgical Pathology Reports: Retrospective Cohort Study. JMIR Formative Research 2025;9:e64544 View
  13. Oyewusi W, Vasquez Osorio E, Nenadic G, MacGregor I, Price G. Data, dialogue, and design: patient and public involvement and engagement for natural language processing with real-world cancer data. Frontiers in Digital Health 2025;7 View
  14. Dai J, Kim M, Sutton R, Mitchell J, Goebel R, Baumgart D. Comparative analysis of natural language processing methodologies for classifying computed tomography enterography reports in Crohn’s disease patients. npj Digital Medicine 2025;8(1) View
  15. Alkalbani A, Alrawahi A, Salah A, Haghighi V, Zhang Y, Alkindi S, Sheng Q. A Systematic Review of Large Language Models in Medical Specialties: Applications, Challenges and Future Directions. Information 2025;16(6):489 View
  16. Yang H, Li M, Zhou H, Xiao Y, Fang Q, Zhou S, Zhang R. Large Language Model Synergy for Ensemble Learning in Medical Question Answering: Design and Evaluation Study. Journal of Medical Internet Research 2025;27:e70080 View
  17. Sun M, Reiter E, Duncan L, Adam R. The role of natural language processing in improving cancer care: A scoping review with narrative synthesis. Artificial Intelligence in Medicine 2025;168:103227 View
  18. Zhou X, Cohen E, Zhou X, Montague E. Leveraging LLM to identify missed information in patient-physician communication: improving healthcare service quality. Frontiers in Medicine 2025;12 View
  19. Mehan N, Desinghe T, Saha A, Nakayama L. Development and evaluation of large-language models (LLMs) for oncology: A scoping review. PLOS Digital Health 2025;4(8):e0000980 View
  20. Benson R, Kenny C, Ashraf Ganjouei A, Zhao M, Darawsheh R, Qian A, Hong J. Large Language Models in Population Oncology: A Contemporary Review on the Use of Large Language Models to Support Data Collection, Aggregation, and Analysis in Cancer Care and Research. JCO Clinical Cancer Informatics 2025;(9) View
  21. Liang Y, Chen C, Wu M, Hsu K, Chang P, Chuang Y, Chen P. Fine-tuning Llama-2-13B with AI-generated medical diagnoses: A novel strategy for optimizing ICD coding in gynecologic oncology. Taiwanese Journal of Obstetrics and Gynecology 2025;64(6):978 View

Conference Proceedings

  1. Li M, Li H. 2022 IEEE/WIC/ACM International Joint Conference on Web Intelligence and Intelligent Agent Technology (WI-IAT). Research on Question Answering over Knowledge Graph of Chronic Diseases View
  2. Tiwari S, Goyal H, adnan M, Shrivastava A, Yadav K, Rao A. 2024 International Conference on Communication, Computer Sciences and Engineering (IC3SE). Clinical Text Analysis with Natural Language Processing: A BERT-based Approach View
  3. Ouchene H, Mezzi M, Oukid L, Benblidia N, Bentayeb F. 2024 IEEE/ACS 21st International Conference on Computer Systems and Applications (AICCSA). Classification of Cancer Pathology Reports Using Rule-Based Approaches: A Review View
  4. Duong T, Thieu T. 2024 IEEE EMBS International Conference on Biomedical and Health Informatics (BHI). OncoNLP: Cancer Comprehend Annotation - a Pipeline for Cancer Phenotype and Clinical Extraction View