Resources


Database Credentialed Access

RadGraph: Extracting Clinical Entities and Relations from Radiology Reports

Saahil Jain, Ashwin Agrawal, Adriel Saporta, Steven QH Truong, Du Nguyen Duong, Tan Bui, Pierre Chambon, Matthew Lungren, Andrew Ng, Curtis Langlotz, Pranav Rajpurkar

RadGraph is a dataset of entities and relations in full-text chest X-ray radiology reports, which are obtained using a novel information extraction (IE) schema to capture clinically relevant information in a radiology report.

entity and relation extraction graph multi-modal natural language processing radiology

Published: June 3, 2021. Version: 1.0.0

Database Credentialed Access

National Institutes of Health Stroke Scale (NIHSS) Annotations for the MIMIC-III Database

Jiayang Wang, Xiaoshuo Huang, Lin Yang, Jiao Li

A dataset of annotated NIHSS scale items and corresponding scores from stroke patients discharge summaries in MIMIC-III.

Published: Jan. 25, 2021. Version: 1.0.0

Challenge Credentialed Access

BioNLP Workshop 2023 Shared Task 1A: Problem List Summarization

Yanjun Gao, Dmitriy Dligach, Timothy Miller, Majid Afshar

This is the data storage for BioNLP Workshop Shared Task 1A: Problem List Summarization.

bionlp clinical natural language processing electronic health record summarization

Published: Nov. 12, 2023. Version: 2.0.0

Database Credentialed Access

EHR-DS-QA: A Synthetic QA Dataset Derived from Medical Discharge Summaries for Enhanced Medical Information Retrieval Systems

Konstantin Kotschenreuther

Dataset consisting of question and answer pairs synthetically generated from medical discharge summaries, designed to facilitate the training and development of large language models specifically tailored for healthcare applications

mimic-iv clinical question-answering medical discharge summaries large language models

Published: Jan. 11, 2024. Version: 1.0.0

Database Credentialed Access

EHR-DS-QA: A Synthetic QA Dataset Derived from Medical Discharge Summaries for Enhanced Medical Information Retrieval Systems

Konstantin Kotschenreuther

Dataset consisting of question and answer pairs synthetically generated from medical discharge summaries, designed to facilitate the training and development of large language models specifically tailored for healthcare applications

mimic-iv clinical question-answering medical discharge summaries large language models

Published: Jan. 11, 2024. Version: 1.0.0

Database Credentialed Access

RadCoref: Fine-tuning coreference resolution for different styles of clinical narratives

Yuxiang Liao, Hantao Liu, Irena Spasic

RadCoref is a small subset of MIMIC-CXR with manually annotated coreference mentions and clusters. Based on the annotated data, we fine-tuned a deep neural model and used it to annotate the whole MIMIC-CXR dataset. Both data are available.

natural language processing coreference resolution radiology

Published: Jan. 30, 2024. Version: 1.0.0

Database Credentialed Access

CORAL: expert-Curated medical Oncology Reports to Advance Language model inference

Madhumita Sushil, Vanessa Kennedy, Divneet Mandair, Brenda Miao, Travis Zack, Atul Butte

Medical oncology progress notes annotated with advanced, comprehensive oncology-relevant concepts and relationships.

information extraction artificial intelligence oncology natural language processing large language models electronic health records

Published: Feb. 7, 2024. Version: 1.0

Model Credentialed Access

Characterization of Stigmatizing Language in Medical Records

Keith Harrigian, Ayah Zirikly, Brant Chee, Alya Ahmad, Anne Links, Somnath Saha, Mary Catherine Beach, Mark Dredze

A suite of classifiers for detecting three types of stigmatizing language in electronic medical records. Trained on MIMIC-IV discharge notes.

clinical natural language processing domain transfer bias stigmatizing language large language models mimic

Published: Nov. 6, 2023. Version: 1.0.0

Database Credentialed Access

Paediatric Intensive Care database

Haomin Li, Xian Zeng, Gang Yu

PIC (Paediatric Intensive Care) is a large paediatric-specific, single-centre, bilingual database comprising information relating to children admitted to critical care units at a large children’s hospital in China.

intensive care pediatrics critical care natural language processing

Published: Nov. 12, 2020. Version: 1.1.0

Database Credentialed Access

MedDec: Medical Decisions for Discharge Summaries in the MIMIC-III Database

Mohamed Elgaar, Jiali Cheng, Nidhi Vakil, Hadi Amiri, Leo Anthony Celi

Annotations of ten types of medical decisions from discharge summaries in the MIMIC-III database.

natural language processing medical decisions span classification discharge summary mimic

Published: Oct. 16, 2024. Version: 1.0.0