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 machine learning named entity recognition data augmentation entity normalization

Published: Feb. 3, 2025. Version: 1.0.0

Database Open Access

CheXmask Database: a large-scale dataset of anatomical segmentation masks for chest x-ray images

Nicolas Gaggion, Candelaria Mosquera, Martina Aineseder, Lucas Mansilla, Diego Milone, Enzo Ferrante

CheXmask Database is a 657,566 uniformly annotated chest radiographs with segmentation masks. Images were segmented using HybridGNet, with automatic quality control indicated by RCA scores.

automatic quality assesment chest x-ray segmentation medical image segmentation

Published: Jan. 22, 2025. Version: 1.0.0

Database Credentialed Access

MIMIC-IV on FHIR

Alex Bennett, Joshua Wiedekopf, Hannes Ulrich, Philip van Damme, Piotr Szul, John Grimes, Alistair Johnson

MIMIC-IV and MIMIC-IV-ED data mapped into FHIR resources.

mimic-iv fhir electronic health record us core fast healthcare interoperability resources mimic

Published: Nov. 12, 2024. Version: 2.1

Database Contributor Review

COVID Data for Shared Learning (CDSL): A comprehensive, multimodal COVID-19 dataset from HM Hospitales

Álvaro Ritoré, Andreea M Oprescu, Alberto Estirado Bronchalo, Miguel Ángel Armengol de la Hoz

COVID Data for Shared Learning (CDSL) is a multimodal database comprising de-identified structured health data and radiological images from 4,479 patients with COVID-19, as a comprehensive toolkit for developing predictive models.

covid-19 multimodal database radiological images open data healthcare data machine learning and ai

Published: Oct. 25, 2024. Version: 1.0.0

Database Credentialed Access

C-REACT: Contextualized Race and Ethnicity Annotations for Clinical Text

Oliver Bear Don't Walk IV, Adrienne Pichon, Harry Reyes Nieva, Tony Sun, Jaan Lı, Joshua Winston Joseph, Sivan Kinberg, Lauren R Richter, Salvatore Crusco, Kyle Kulas, Shaan Ahmed, Daniel Snyder, Ashkon Rahbari, Benjamin Ranard, Pallavi Juneja, Dina Demner-Fushman, Noemie Elhadad

Two sets of gold-standard annotations for race and ethnicity information from clinical notes in MIMIC-III. Contains race and ethnicity label assignments and related information such as country of origin and spoken language.

clinical notes patient country information race and ethnicity patient language information

Published: Oct. 21, 2024. Version: 1.0.0

Database Credentialed Access

Comprehensive Polysomnography (CPS) Dataset: A Resource for Sleep-Related Arousal Research

Stefan Kraft, Andreas Theissler, Vera Wienhausen-Wilke, Philipp Walter, Gjergji Kasneci

This dataset includes polysomnographic sleep recordings from a study on sleep-related arousal diagnostics, featuring raw and derived data channels, annotated event types, and questionnaire data.

polysomnography sleep disorders machine learning in healthcare sleep arousal diagnostics pulse wave analysis

Published: Sept. 18, 2024. Version: 1.0.0

Database Credentialed Access

MIMIC-IV-Ext-MDS-ED: Multimodal Decision Support in the Emergency Department - a Benchmark Dataset for Diagnoses and Deterioration Prediction in Emergency Medicine

Juan Miguel Lopez Alcaraz, Nils Strodthoff

MIMIC-IV-ext-MDS-ED proposes a dataset to benchmark multimodal decision support in the emergency department. It features multimodal input (including ECG waveforms) and a comprehensive set of prediction targets (diagnoses and deterioration prediction)

emergency department ecg diagnoses prediction deterioration prediction benchmark multimodal

Published: Sept. 12, 2024. Version: 1.0.0

Database Contributor Review

Salzburg Intensive Care database (SICdb), a freely accessible intensive care database

Niklas Rodemund, Andreas Kokoefer, Bernhard Wernly, Crispiana Cozowicz

The SICdb dataset, version 1.0.8 contains 27350 admissions to an ICU in an Austrian tertiary care institution.

clinical intensive care critical care machine learning open data

Published: Sept. 10, 2024. Version: 1.0.8

Database Restricted Access

Multimodal Physiological Indices During Surgery Under Anesthesia

Sandya Subramanian, Bryan Tseng, Riccardo Barbieri, Emery Brown

Multimodal physiological indices collected during surgery when patients were under anesthesia

anesthesia nociception

Published: Aug. 23, 2024. Version: 1.0

Database Credentialed Access

ENCoDE, mEasuring skiN Color to correct pulse Oximetry DisparitiEs: skin tone and clinical data from a prospective trial on acute care patients.

Sicheng Hao, Katelyn Dempsey, João Matos, Mahmoud Alwakeel, Jared Houghtaling, An Kwok Wong

A prospective collected EHR-linked skin tone measurements database in OMOP format with emphasis on pulse oximetry disparities.

Published: Aug. 22, 2024. Version: 1.0.0