Resources


Model Credentialed Access

Asclepius-R : Clinical Large Language Model Built On MIMIC-III Discharge Summaries

Sunjun Kweon, Junu Kim, Jiyoun Kim, Sujeong Im, Eunbyeol Cho, Seongsu Bae, Jungwoo Oh, Gyubok Lee, Jong Hak Moon, Seng Chan You, Seungjin Baek, Chang Hoon Han, Yoon Bin Jung, Yohan Jo, Edward Choi

Asclepius: Publicly Available Clinical Large Language Models with Synthetic Clinical Notes Asclepius-R: A instruction-finetuned large language model with MIMIC-III clinical notes

clinical notes synthetic notes large language model asclepius synthetic clinical notes llm open-source clinical llm

Published: Jan. 30, 2024. Version: 1.0.1

Model Credentialed Access

Clinical-T5: Large Language Models Built Using MIMIC Clinical Text

Eric Lehman, Alistair Johnson

We train a T5-Base and T5-Large from scratch on MIMIC-III and MIMIC-IV. Additionally, we further pretrain T5-Base and SciFive on notes from MIMIC. We release these model weights on PhysioNet.

Published: Jan. 25, 2023. 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 large language models clinical question-answering medical discharge summaries

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 large language models clinical question-answering medical discharge summaries

Published: Jan. 11, 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 Credentialed Access

Medication Extraction Labels for MIMIC-IV-Note Clinical Database

Akshay Goel, Almog Gueta, Omry Gilon, Sofia Erell, Amir Feder

Medication extraction NLP labels for 600 discharge summaries in MIMIC-IV-Note dataset.

Published: Dec. 12, 2023. 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

MS-CXR: Making the Most of Text Semantics to Improve Biomedical Vision-Language Processing

Benedikt Boecking, Naoto Usuyama, Shruthi Bannur, Daniel Coelho de Castro, Anton Schwaighofer, Stephanie Hyland, Maria Teodora Wetscherek, Tristan Naumann, Aditya Nori, Javier Alvarez Valle, Hoifung Poon, Ozan Oktay

MS-CXR is a new dataset containing 1162 Chest X-ray bounding box labels paired with radiology text descriptions, annotated and verified by two board-certified radiologists.

chest x-ray vision-language processing

Published: May 16, 2022. Version: 0.1

Database Credentialed Access

CXR-PRO: MIMIC-CXR with Prior References Omitted

Vignav Ramesh, Nathan Chi, Pranav Rajpurkar

CXR-PRO is an adaptation of the MIMIC-CXR dataset (consisting of chest radiographs and their associated free-text radiology reports) with references to non-existent priors removed.

large language models generation free-text radiology reports references to priors retrieval

Published: Nov. 23, 2022. Version: 1.0.0

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.

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

Published: Nov. 6, 2023. Version: 1.0.0