Resources


Database Credentialed Access

AIPatient KG: MIMIC-III and CORAL Electronic Health Records based Patient Knowledge Graph

Lizhou Fan, Huizi Yu

This project integrates MIMIC-III and CORAL electronic health records into knowledge graphs to improve medical analysis and enhance decision-making capabilities. Resources include two knowledge graph snapshots and two question-and-answering datasets.

Published: April 15, 2025. Version: 1.0.0

Model Credentialed Access

Clinical BERT Models Trained on Pseudo Re-identified MIMIC-III Notes

Eric Lehman, Sarthak Jain, Karl Pichotta, Yoav Goldberg, Byron Wallace

We explore recovering sensitive info from BERT trained over non-deidentified EHR. We make our models and data available to further facilitate research.

Published: April 28, 2021. Version: 1.0.0

Database Credentialed Access

Phenotype Annotations for Patient Notes in the MIMIC-III Database

Edward Moseley, Leo Anthony Celi, Joy Wu, Franck Dernoncourt

Clinical notes, annotated by at least two expert annotators for over ten patient phenotypes, including advanced cancer, substance abuse, and treatment non-adherence.

patient classification natural language processing

Published: March 5, 2020. Version: 1.20.03

Database Credentialed Access

EHRNoteQA: An LLM Benchmark for Real-World Clinical Practice Using Discharge Summaries

Sunjun Kweon, Jiyoun Kim, Heeyoung Kwak, Dongchul Cha, Hangyul Yoon, Kwang Hyun Kim, Jeewon Yang, Seunghyun Won, Edward Choi

An LLM Benchmark for Real-World Clinical Practice Using Discharge Summaries

Published: June 26, 2024. Version: 1.0.1

Database Credentialed Access

MeDiSumQA: Patient-Oriented Question-Answer Generation from Discharge Letters

Amin Dada, Osman Alperen Koras, Marie Bauer, Amanda Butler, Kaleb Smith, Jens Kleesiek, Julian Friedrich

MeDiSumQA is a dataset of patient-oriented QA pairs from MIMIC-IV discharge summaries, designed to evaluate LLMs in generating safe, patient-friendly medical responses for clinical QA and healthcare communication.

Published: May 5, 2025. Version: 1.0.0

Database Credentialed Access

MedNLI - A Natural Language Inference Dataset For The Clinical Domain

Chaitanya Shivade

This is a resource for training machine learning models for language inference in the medical domain.

natural language inference recognizing textual entailment

Published: Oct. 1, 2019. Version: 1.0.0

Database Credentialed Access

Immunosuppressive Condition and Medication Annotations for Admission Notes in the MIMIC-III Database

Vijeeth Guggilla, Melissa Bak, Mengjia Kang, Theresa Walunas, Catherine A Gao

This database contains 200 MIMIC-III admission notes with adjudicated labels for histories of various immunosuppressive conditions and usage of various immunosuppressive medications.

Published: Aug. 4, 2025. Version: 1.0.0

Database Credentialed Access

MIMIC-IV-Ext Clinical Decision Making: A MIMIC-IV Derived Dataset for Evaluation of Large Language Models on the Task of Clinical Decision Making for Abdominal Pathologies

Paul Hager, Friederike Jungmann, Daniel Rueckert

A curated set of ED clinical decision making cases for four abdominal pathologies. Each case contains the exams required to diagnose including HPI, physical examination, laboratory tests, and imaging. Relevant treatment information is also included.

clinical decision making abdominal pathologies treatment plan emergency room diagnosis large language models

Published: July 8, 2024. Version: 1.1

Database Credentialed Access

Annotation dataset of problematic opioid use and related contexts from MIMIC-III Critical Care Database discharge summaries

Melissa Poulsen, Vanessa Troiani, Philip Freda, Danielle Mowery, Anahita Davoudi

The database contains a corpus of annotated data from the MIMIC-III Critical Care Database from a study that aimed to develop and apply an annotation schema to characterize opioid use disorder and related contextual factors.

opioid use disorder substance use clinical notes natural language processing

Published: Feb. 8, 2023. Version: 1.0.0

Database Credentialed Access

Annotation dataset of problematic opioid use and related contexts from MIMIC-III Critical Care Database discharge summaries

Melissa Poulsen, Vanessa Troiani, Philip Freda, Danielle Mowery, Anahita Davoudi

The database contains a corpus of annotated data from the MIMIC-III Critical Care Database from a study that aimed to develop and apply an annotation schema to characterize opioid use disorder and related contextual factors.

opioid use disorder substance use clinical notes natural language processing

Published: Feb. 8, 2023. Version: 1.0.0