Resources


Database Credentialed Access

EchoNotes Structured Database derived from MIMIC-III (ECHO-NOTE2NUM)

Gloria Hyunjung Kwak, Dana Moukheiber, Mira Moukheiber, Lama Moukheiber, Sulaiman Moukheiber, Neel Butala, Leo Anthony Celi, Christina Chen

A structured echocardiogram database derived from 43,472 observational notes obtained during echocardiogram studies conducted in the intensive care unit at the Beth Israel Deaconess Medical Center between 2001 and 2012.

Published: Feb. 23, 2024. 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 information extraction clinical documentation invasive fungal infections

Published: Feb. 20, 2024. Version: 1.0.2


Database Credentialed Access

MIMIC-IV on FHIR

Alex Bennett, Joshua Wiedekopf, Hannes Ulrich, Philip van Damme, Alistair Johnson

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

mimic-iv fhir electronic health record

Published: Feb. 20, 2024. Version: 1.0


Software Open Access

Software for computing Heart Rate Fragmentation

Madalena Costa

Heart rate fragmentation: a new method for the analysis of cardiac interbeat interval time series. The code provided can be run in Windows, Mac and Linux machines.

heart rate variability aging cardiovascular disease vagal tone time series analysis prediction of atrial fibrillation cardiac autonomic function prediction of cardiovascular events prediction of cognitive decline heart rate fragmentation

Published: Feb. 14, 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.

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

Published: Feb. 7, 2024. Version: 1.0


Database Open Access

A Multi-Modal Satellite Imagery Dataset for Public Health Analysis in Colombia

Sebastian A Cajas, David Restrepo, Dana Moukheiber, Kuan Ting Kuo, Chenwei Wu, David Santiago Garcia Chicangana, Atika Rahman Paddo, Mira Moukheiber, Lama Moukheiber, Sulaiman Moukheiber, Saptarshi Purkayastha, Diego M Lopez, Po-Chih Kuo, Leo Anthony Celi

Multi-Modal Satellite imagery Dataset in Colombia: A public health analysis with spatiotemporally aligned satellite images and its corresponding metadata across 81 municipalities (2016-2018), facilitating multimodal AI applications.

multimodality satellite imagery

Published: Jan. 30, 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.

radiology natural language processing coreference resolution

Published: Jan. 30, 2024. Version: 1.0.0


Database Credentialed Access

Annotation dataset of social determinants of health from MIMIC-III Clinical Care Database

Marco Guevara, Shan Chen, Spencer Thomas, Danielle Bitterman

Annotation dataset of social determinants of health from MIMC-III Clinical Care Database notes.

natural language processing social determinants of health

Published: Jan. 24, 2024. Version: 1.0.1


Database Open Access

A Comprehensive Dataset of Pattern Electroretinograms for Ocular Electrophysiology Research: The PERG-IOBA Dataset

Itziar Fernández, Ruben Cuadrado Asensio, Yolanda Larriba, Cristina Rueda, Rosa M Coco-Martin

336 CSV records with 1354 PERG responses (microvolts) from 304 subjects at IOBA. Includes age (years), gender, diagnoses, and visual acuity in logMar scale.

Published: Jan. 19, 2024. Version: 1.0.0


Database Credentialed Access

ODD: A Benchmark Dataset for the NLP-based Opioid Related Aberrant Behavior Detection

Sunjae Kwon, Xun Wang, Weisong Liu, Emily Druhl, Minhee Sung, Joel Reisman, Wenjun Li, Robert Kerns, William Becker, Hong Yu

Opioid-related aberrant behaviors (ORABs) detection Dataset (ODD) which is a large-size, expert-annotated, and multi-label classification benchmark dataset corresponding to the task

natural language processing substance use opioid related aberrant behavior

Published: Jan. 11, 2024. Version: 1.0.0