Foresight -- Generative Pretrained Transformer (GPT) for Modelling of Patient Timelines using EHRs

2 code implementations • 13 Dec 2022 • Zeljko Kraljevic, Dan Bean, Anthony Shek, Rebecca Bendayan, Harry Hemingway, Joshua Au Yeung, Alexander Deng, Alfie Baston, Jack Ross, Esther Idowu, James T Teo, Richard J Dobson

We explore how temporal modelling of patients from free text and structured data, using deep generative transformers can be used to forecast a wide range of future disorders, substances, procedures or findings.

named-entity-recognition Named Entity Recognition +1

MedGPT: Medical Concept Prediction from Clinical Narratives

no code implementations • 7 Jul 2021 • Zeljko Kraljevic, Anthony Shek, Daniel Bean, Rebecca Bendayan, James Teo, Richard Dobson

The data available in Electronic Health Records (EHRs) provides the opportunity to transform care, and the best way to provide better care for one patient is through learning from the data available on all other patients.

Multiple-choice named-entity-recognition +3

Multi-domain Clinical Natural Language Processing with MedCAT: the Medical Concept Annotation Toolkit

1 code implementation • 2 Oct 2020 • Zeljko Kraljevic, Thomas Searle, Anthony Shek, Lukasz Roguski, Kawsar Noor, Daniel Bean, Aurelie Mascio, Leilei Zhu, Amos A Folarin, Angus Roberts, Rebecca Bendayan, Mark P Richardson, Robert Stewart, Anoop D Shah, Wai Keong Wong, Zina Ibrahim, James T Teo, Richard JB Dobson

Electronic health records (EHR) contain large volumes of unstructured text, requiring the application of Information Extraction (IE) technologies to enable clinical analysis.

Comparative Analysis of Text Classification Approaches in Electronic Health Records

no code implementations • WS 2020 • Aurelie Mascio, Zeljko Kraljevic, Daniel Bean, Richard Dobson, Robert Stewart, Rebecca Bendayan, Angus Roberts

Text classification tasks which aim at harvesting and/or organizing information from electronic health records are pivotal to support clinical and translational research.

General Classification text-classification +1

Identifying physical health comorbidities in a cohort of individuals with severe mental illness: An application of SemEHR

no code implementations • 7 Feb 2020 • Rebecca Bendayan, Honghan Wu, Zeljko Kraljevic, Robert Stewart, Tom Searle, Jaya Chaturvedi, Jayati Das-Munshi, Zina Ibrahim, Aurelie Mascio, Angus Roberts, Daniel Bean, Richard Dobson

Multimorbidity research in mental health services requires data from physical health conditions which is traditionally limited in mental health care electronic health records.

MedCAT -- Medical Concept Annotation Tool

no code implementations • 18 Dec 2019 • Zeljko Kraljevic, Daniel Bean, Aurelie Mascio, Lukasz Roguski, Amos Folarin, Angus Roberts, Rebecca Bendayan, Richard Dobson

To uncover the potential of biomedical documents we need to extract and structure the information they contain.

Active Learning Entity Extraction using GAN +3

MedCATTrainer: A Biomedical Free Text Annotation Interface with Active Learning and Research Use Case Specific Customisation

no code implementations • IJCNLP 2019 • Thomas Searle, Zeljko Kraljevic, Rebecca Bendayan, Daniel Bean, Richard Dobson

Secondary use of data for clinical research often has task and context specific criteria.

Active Learning named-entity-recognition +3