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

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What this work says

Outgoing claims: the papers this work cites, builds on, or argues with.

inferredcites →https://doi.org/10.1001/jama.2011.1204openalex-snapshot
Automated Identification of Postoperative Complications Within an Electronic Medical Record Using Natural Language Processing
inferredcites →https://doi.org/10.1001/jama.2013.393openalex-snapshot
The Inevitable Application of Big Data to Health Care
inferredcites →https://doi.org/10.1002/asi.4630290207openalex-snapshot
Automatic indexing of pathology data
inferredcites →https://doi.org/10.1002/cncr.22566openalex-snapshot
Case completeness and data accuracy in the Centers for Disease Control and Prevention's National Program of Cancer Registries
inferredcites →https://doi.org/10.1007/978-3-030-43887-6_64openalex-snapshot
Pre-trained Language Model for Biomedical Question Answering
inferredcites →https://doi.org/10.1007/978-3-030-59137-3_11openalex-snapshot
Predicting Clinical Diagnosis from Patients Electronic Health Records Using BERT-Based Neural Networks
inferredcites →https://doi.org/10.1007/978-3-319-40618-3openalex-snapshot
AJCC Cancer Staging Manual
inferredcites →https://doi.org/10.1007/s10549-018-4668-3openalex-snapshot
Machine learning to parse breast pathology reports in Chinese
inferredcites →https://doi.org/10.1007/s10552-010-9616-4openalex-snapshot
Pattern-based information extraction from pathology reports for cancer registration
inferredcites →https://doi.org/10.1007/s40708-016-0042-6openalex-snapshot
Interactive machine learning for health informatics: when do we need the human-in-the-loop?
inferredcites →https://doi.org/10.1007/s41666-020-00082-4openalex-snapshot
Federated Learning for Healthcare Informatics
inferredcites →https://doi.org/10.1016/0004-3702(78)90011-5openalex-snapshot
Question answering from natural language medical data bases
inferredcites →https://doi.org/10.1016/j.jbi.2005.11.004openalex-snapshot
Natural language processing to extract medical problems from electronic clinical documents: Performance evaluation
inferredcites →https://doi.org/10.1016/j.jbi.2008.12.005openalex-snapshot
Automatically extracting cancer disease characteristics from pathology reports into a Disease Knowledge Representation Model
inferredcites →https://doi.org/10.1016/j.jbi.2019.103301openalex-snapshot
A frame semantic overview of NLP-based information extraction for cancer-related EHR notes
inferredcites →https://doi.org/10.1016/j.juro.2016.02.1267openalex-snapshot
MP31-14 LEVERAGING BLADDER CANCER PATHOLOGY REPORTS FOR RESEARCH: GLEANING MEANING DESPITE WIDELY VARIABLE LANGUAGE
inferredcites →https://doi.org/10.1016/j.juro.2017.02.987openalex-snapshot
MP32-12 HARNESSING FULL TEXT PATHOLOGY DATA FROM THE ELECTRONIC HEALTH RECORD TO ADVANCE BLADDER CANCER CARE – DEVELOPMENT OF A NATURAL LANGUAGE PROCESSING SYSTEM TO GENERATE LONGITUDINAL PATHOLOGY DATA
inferredcites →https://doi.org/10.1016/j.urology.2017.07.056openalex-snapshot
Development of a Natural Language Processing Engine to Generate Bladder Cancer Pathology Data for Health Services Research
inferredcites →https://doi.org/10.1038/sdata.2016.35openalex-snapshot
MIMIC-III, a freely accessible critical care database
inferredcites →https://doi.org/10.1055/s-0038-1667080openalex-snapshot
Expanding the Diversity of Texts and Applications: Findings from the Section on Clinical Natural Language Processing of the International Medical Informatics Association Yearbook
inferredcites →https://doi.org/10.1090/mbk/121/79openalex-snapshot
arXiv
inferredcites →https://doi.org/10.1093/bioinformatics/btz682openalex-snapshot
BioBERT: a pre-trained biomedical language representation model for biomedical text mining
inferredcites →https://doi.org/10.1093/jamia/ocaa080openalex-snapshot
Unified Medical Language System resources improve sieve-based generation and Bidirectional Encoder Representations from Transformers (BERT)–based ranking for concept normalization
inferredcites →https://doi.org/10.1093/jamia/ocx131openalex-snapshot
Hierarchical attention networks for information extraction from cancer pathology reports
inferredcites →https://doi.org/10.1093/jamia/ocz200openalex-snapshot
Deep learning in clinical natural language processing: a methodical review
inferredcites →https://doi.org/10.1109/bhi.2018.8333408openalex-snapshot
Coarse-to-fine multi-task training of convolutional neural networks for automated information extraction from cancer pathology reports
inferredcites →https://doi.org/10.1109/bhi.2018.8333439openalex-snapshot
Filter pruning of Convolutional Neural Networks for text classification: A case study of cancer pathology report comprehension
inferredcites →https://doi.org/10.1109/icdm50108.2020.00050openalex-snapshot
BiteNet: Bidirectional Temporal Encoder Network to Predict Medical Outcomes
inferredcites →https://doi.org/10.1109/jbhi.2017.2700722openalex-snapshot
Deep Learning for Automated Extraction of Primary Sites From Cancer Pathology Reports
inferredcites →https://doi.org/10.1109/tkde.2009.191openalex-snapshot
A Survey on Transfer Learning
inferredcites →https://doi.org/10.1109/worlds450073.2020.9210351openalex-snapshot
Contextual Chatbot for Healthcare Purposes (using Deep Learning)
inferredcites →https://doi.org/10.1111/1742-6723.13656openalex-snapshot
Advanced natural language processing technique to predict patient disposition based on emergency triage notes
inferredcites →https://doi.org/10.1136/jclinpath-2016-203872openalex-snapshot
Natural language processing in pathology: a scoping review
inferredcites →https://doi.org/10.1145/3065386openalex-snapshot
ImageNet classification with deep convolutional neural networks
inferredcites →https://doi.org/10.1177/1073274820946794openalex-snapshot
Quality Assurance and Continuing Education: A Cyclic Approach for Maintaining High Quality Data in a High Volume Cancer Registry
inferredcites →https://doi.org/10.1186/s12859-015-0564-6openalex-snapshot
An overview of the BIOASQ large-scale biomedical semantic indexing and question answering competition
inferredcites →https://doi.org/10.1186/s12911-018-0609-7openalex-snapshot
Automated extraction of Biomarker information from pathology reports
inferredcites →https://doi.org/10.12681/eadd/48548openalex-snapshot
Artificial intelligence in medicine
inferredcites →https://doi.org/10.18653/v1/2020.emnlp-demos.6openalex-snapshot
Transformers: State-of-the-Art Natural Language Processing
inferredcites →https://doi.org/10.18653/v1/d16-1264openalex-snapshot
SQuAD: 100,000+ Questions for Machine Comprehension of Text
inferredcites →https://doi.org/10.18653/v1/p19-1285openalex-snapshot
Transformer-XL: Attentive Language Models beyond a Fixed-Length Context
inferredcites →https://doi.org/10.18653/v1/p19-1452openalex-snapshot
BERT Rediscovers the Classical NLP Pipeline
inferredcites →https://doi.org/10.18653/v1/w18-5446openalex-snapshot
GLUE: A Multi-Task Benchmark and Analysis Platform for Natural Language Understanding
inferredcites →https://doi.org/10.18653/v1/w19-1909openalex-snapshot
Publicly Available Clinical
inferredcites →https://doi.org/10.18653/v1/w19-4828openalex-snapshot
What Does BERT Look at? An Analysis of BERT’s Attention
inferredcites →https://doi.org/10.18653/v1/w19-5034openalex-snapshot
ScispaCy: Fast and Robust Models for Biomedical Natural Language Processing
inferredcites →https://doi.org/10.21437/interspeech.2020-2059openalex-snapshot
ContextNet: Improving Convolutional Neural Networks for Automatic Speech Recognition with Global Context
inferredcites →https://doi.org/10.2196/14830openalex-snapshot
Fine-Tuning Bidirectional Encoder Representations From Transformers (BERT)–Based Models on Large-Scale Electronic Health Record Notes: An Empirical Study
inferredcites →https://doi.org/10.24963/ijcai.2019/825openalex-snapshot
Pre-training of Graph Augmented Transformers for Medication Recommendation
inferredcites →https://doi.org/10.3390/healthcare8030307openalex-snapshot
Sentiment Analysis Methods for HPV Vaccines Related Tweets Based on Transfer Learning
inferredcites →https://doi.org/10.4103/2153-3539.97788openalex-snapshot
The feasibility of using natural language processing to extract clinical information from breast pathology reports

What points at this work

Incoming claims: where this work appears in other papers’ reference lists and arguments.

inferred← citeshttps://doi.org/10.1007/s12105-026-01892-5openalex-snapshot
Artificial Intelligence Basics for Head and Neck Pathologists: A Simple Guide
inferred← citeshttps://doi.org/10.1007/s44196-026-01164-8openalex-snapshot
A Review on the Applications and Implications of Artificial Intelligence and Machine Learning in Oncology
inferred← citeshttps://doi.org/10.1016/j.artmed.2025.103227openalex-snapshot
The role of natural language processing in improving cancer care: A scoping review with narrative synthesis
inferred← citeshttps://doi.org/10.1016/j.cmpb.2024.108567openalex-snapshot
Leveraging Transformers-based models and linked data for deep phenotyping in radiology
inferred← citeshttps://doi.org/10.1016/j.esmorw.2026.100684openalex-snapshot
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A review of medical text analysis: Theory and practice
inferred← citeshttps://doi.org/10.1016/j.scib.2026.02.012openalex-snapshot
The role of artificial intelligence in advancing population-based cancer registration
inferred← citeshttps://doi.org/10.1016/j.tjog.2025.02.006openalex-snapshot
Fine-tuning Llama-2-13B with AI-generated medical diagnoses: A novel strategy for optimizing ICD coding in gynecologic oncology
inferred← citeshttps://doi.org/10.1038/s41746-025-01729-5openalex-snapshot
Comparative analysis of natural language processing methodologies for classifying computed tomography enterography reports in Crohn’s disease patients
inferred← citeshttps://doi.org/10.1080/14737167.2024.2322664openalex-snapshot
Using natural language processing to analyze unstructured patient-reported outcomes data derived from electronic health records for cancer populations: a systematic review
inferred← citeshttps://doi.org/10.1093/bjrai/ubae019openalex-snapshot
Large language models in cancer: potentials, risks, and safeguards
inferred← citeshttps://doi.org/10.1093/med/9780192867636.003.0022openalex-snapshot
Application of artificial intelligence to overcome clinical information overload in cancer
inferred← citeshttps://doi.org/10.1101/2023.07.11.23292529openalex-snapshot
Natural Language Processing Can Automate Extraction of Barrett’s Esophagus Endoscopy Quality Metrics
inferred← citeshttps://doi.org/10.1101/2023.11.08.23298252openalex-snapshot
Development of a privacy preserving large language model for automated data extraction from thyroid cancer pathology reports
inferred← citeshttps://doi.org/10.1109/aiccsa63423.2024.10912584openalex-snapshot
Classification of Cancer Pathology Reports Using Rule-Based Approaches: A Review
inferred← citeshttps://doi.org/10.1109/bhi62660.2024.10913931openalex-snapshot
OncoNLP: Cancer Comprehend Annotation - a Pipeline for Cancer Phenotype and Clinical Extraction
inferred← citeshttps://doi.org/10.1109/ic3se62002.2024.10593504openalex-snapshot
Clinical Text Analysis with Natural Language Processing: A BERT-based Approach
inferred← citeshttps://doi.org/10.1109/wi-iat55865.2022.00088openalex-snapshot
Research on Question Answering over Knowledge Graph of Chronic Diseases
inferred← citeshttps://doi.org/10.1200/cci-25-00112openalex-snapshot
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
inferred← citeshttps://doi.org/10.1371/journal.pdig.0000692openalex-snapshot
Classification of periodontitis stage and grade using natural language processing techniques
inferred← citeshttps://doi.org/10.1371/journal.pdig.0000980openalex-snapshot
Development and evaluation of large-language models (LLMs) for oncology: A scoping review
inferred← citeshttps://doi.org/10.1371/journal.pone.0318726openalex-snapshot
Leveraging natural language processing for efficient information extraction from breast cancer pathology reports: Single-institution study
inferred← citeshttps://doi.org/10.21203/rs.3.rs-2303726/v1openalex-snapshot
Natural Language Processing based Obtaining Information in Pathology Report of Breast Cancer: Single-Institution Study
inferred← citeshttps://doi.org/10.21203/rs.3.rs-5128451/v1openalex-snapshot
A Systematic Review of Large Language Models in Medical Specialties: Applications, Challenges and Future Directions
inferred← citeshttps://doi.org/10.21203/rs.3.rs-5128451/v2openalex-snapshot
A Systematic Review of Large Language Models in Medical Specialties: Applications, Challenges and Future Directions
inferred← citeshttps://doi.org/10.21203/rs.3.rs-9877110/v1openalex-snapshot
Development and Open-Source Release of a Multi-Cancer Module for Structuring Pathology Reports
inferred← citeshttps://doi.org/10.2196/49724openalex-snapshot
Task-Specific Transformer-Based Language Models in Health Care: Scoping Review
inferred← citeshttps://doi.org/10.2196/57670openalex-snapshot
Novel Approach to Personalized Physician Recommendations Using Semantic Features and Response Metrics: Model Evaluation Study
inferred← citeshttps://doi.org/10.2196/64544openalex-snapshot
Using Large Language Models to Automate Data Extraction From Surgical Pathology Reports: Retrospective Cohort Study
inferred← citeshttps://doi.org/10.2196/65984openalex-snapshot
Large Language Model Applications for Health Information Extraction in Oncology: Scoping Review
inferred← citeshttps://doi.org/10.2196/70080openalex-snapshot
Large Language Model Synergy for Ensemble Learning in Medical Question Answering: Design and Evaluation Study
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Development and Evaluation of Large Language Model-Assisted Semi-Automated Data Harmonization Pipeline for the Multiple Chronic Disease Disparities Research Consortium: A Proof-of-Concept Study (Preprint)
inferred← citeshttps://doi.org/10.2196/96347openalex-snapshot
Multilingual Evidence-Based Question-Answering for Stroke Discharge Summaries: Study of Cross-Lingual Heterogeneity in Clinical Reports
inferred← citeshttps://doi.org/10.2196/preprints.41966openalex-snapshot
Tuning a neural information retrieval system in medical domains with limited data: Development Study (Preprint)
inferred← citeshttps://doi.org/10.2196/preprints.44045openalex-snapshot
Natural Language Processing based Obtaining Information in Pathology Report of Breast Cancer: Single-Institution Study (Preprint)
inferred← citeshttps://doi.org/10.2196/preprints.96347openalex-snapshot
Multilingual Evidence-Based Question Answering for Stroke Discharge Summaries: Study of Cross-Lingual Heterogeneity in Clinical Reports (Preprint)
inferred← citeshttps://doi.org/10.3389/fdgth.2025.1560757openalex-snapshot
Data, dialogue, and design: patient and public involvement and engagement for natural language processing with real-world cancer data
inferred← citeshttps://doi.org/10.3389/fmed.2025.1631565openalex-snapshot
Leveraging LLM to identify missed information in patient-physician communication: improving healthcare service quality
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Data Stewardship Barriers to Building Digital Twin Technology for Precision Medicine
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Applications of Large Language Models in Pathology
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Artificial Intelligence Applications to Improve the Treatment of Locally Advanced Non-Small Cell Lung Cancers
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Hybrid Lexical–Semantic AI Architecture for Automated Cancer Registry Coding for the Vet-ICD-O-Canine-1 System from Free-Text Veterinary Pathology Reports
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A Systematic Review of Large Language Models in Medical Specialties: Applications, Challenges and Future Directions
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exKidneyBERT: a language model for kidney transplant pathology reports and the crucial role of extended vocabularies
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