Resources


Database Open Access

Synthetic Mention Corpora for Disease Entity Recognition and Normalization

Kuleen Sasse, John David Osborne

We present the Synthetic Mention Corpora for Disease Entity Recognition and Normalization, containing 128000 disease mentions from the UMLS disorder group, generated by an LLM. This corpus aims to improve these tasks in biomedical and clinical texts.

nlp named entity recognition machine learning data augmentation entity normalization

Published: Feb. 3, 2025. Version: 1.0.0


Database Open Access

Synthetic Mention Corpora for Disease Entity Recognition and Normalization

Kuleen Sasse, John David Osborne

We present the Synthetic Mention Corpora for Disease Entity Recognition and Normalization, containing 128000 disease mentions from the UMLS disorder group, generated by an LLM. This corpus aims to improve these tasks in biomedical and clinical texts.

nlp named entity recognition machine learning data augmentation entity normalization

Published: Feb. 3, 2025. Version: 1.0.0


Database Restricted Access

CXRGraph: Using Information Extraction to Normalize the Training Data for Automatic Radiology Report Generation

Yuxiang Liao, Hoisang Heung, Hantao Liu, Irena Spasic

CXRGraph is a structured radiology report dataset built upon RadGraph and tailored for the Automatic Radiology Report Generation task. It can identify more task-relevant information such as abnormalities and hallucinated prior references.

relation extraction information extraction natural language processing named entity recognition structured radiology report

Published: Feb. 3, 2025. Version: 1.0.0


Database Restricted Access

CXRGraph: Using Information Extraction to Normalize the Training Data for Automatic Radiology Report Generation

Yuxiang Liao, Hoisang Heung, Hantao Liu, Irena Spasic

CXRGraph is a structured radiology report dataset built upon RadGraph and tailored for the Automatic Radiology Report Generation task. It can identify more task-relevant information such as abnormalities and hallucinated prior references.

relation extraction information extraction natural language processing named entity recognition structured radiology report

Published: Feb. 3, 2025. Version: 1.0.0


Database Credentialed Access

CHIFIR: Cytology and Histopathology Invasive Fungal Infection Reports

Vlada Rozova, Anna Khanina, Jasmine Teng, Joanne Teh, Leon Worth, Monica Slavin, karin thursky, Karin Verspoor

A corpus of cytology and histopathology reports annotated for terminology relevant to fungal infections. Ideal for validation of named entity recognition and relation extraction methods.

nlp clinical documentation information extraction invasive fungal infections

Published: Feb. 20, 2024. Version: 1.0.2


Database Credentialed Access

RadGraph2: Tracking Findings Over Time in Radiology Reports

Adam Dejl, Sameer Khanna, Patricia Therese Pile, Kibo Yoon, Steven QH Truong, Hanh Duong, Agustina Saenz, Pranav Rajpurkar

RadGraph2 is a dataset of 800 chest radiology reports annotated using a fine-grained entity-relationship schema, which captures key findings as well as mentions of changes that occurred in comparison with the previous radiology studies.

chest x-rays relation extraction disease progression information extraction radiology reports named entity recognition

Published: Aug. 8, 2024. Version: 1.0.0


Database Credentialed Access

RadGraph2: Tracking Findings Over Time in Radiology Reports

Adam Dejl, Sameer Khanna, Patricia Therese Pile, Kibo Yoon, Steven QH Truong, Hanh Duong, Agustina Saenz, Pranav Rajpurkar

RadGraph2 is a dataset of 800 chest radiology reports annotated using a fine-grained entity-relationship schema, which captures key findings as well as mentions of changes that occurred in comparison with the previous radiology studies.

chest x-rays relation extraction disease progression information extraction radiology reports named entity recognition

Published: Aug. 8, 2024. Version: 1.0.0