DATA

Everything about data including open source, healthcare data sets and more, in one location.

COVID-19 Open Research Dataset Challenge (CORD-19)  General/Infectious disease

In response to the COVID-19 pandemic, the White House and a coalition of leading research groups have prepared the COVID-19 Open Research Dataset (CORD-19). CORD-19 is a resource of over 29,000 scholarly articles, including over 13,000 with full text, about COVID-19, SARS-CoV-2, and related coronaviruses.

Novel Corona Virus 2019 Dataset  General/Infectious disease

From World Health Organization - On 31 December 2019, WHO was alerted to several cases of pneumonia in Wuhan City, Hubei Province of China.

This dataset has daily level information on the number of affected cases, deaths and recovery from 2019 novel coronavirus. Please note that this is a time series data and so the number of cases on any given day is the cumulative number.

The data is available from 22 Jan, 2020.

 

PHYSIONET  General/Critical Care

https://physionet.org/about/database/

One of the best sources of datasets in healthcare.Primarily from ICU patients.

Includes:

• Clinical datasets such as MIMIC,eICU collaborative and Pediatic ICU datasets.
• Waveform datasets with ECG,EEG,arterial blood pressure waveform.
• ECG datasets with various pathophysiologic changes and drug interactions.
• Fetal datasets including sounds and ECG.
• Gait and Balance datasets include gait dynamics for patients with various neurodegenerative disorders.
• Neuro and Myoelectic datasets with EEG,EMG and evoked potential waveforms.
• Image datasets with Chest X-rays and MRI images.
• Computed Tomography Images for Intracranial Hemorrhage Detection and Segmentation
• Miscellaneous datasets with text, language,posture and other datasets.

 

ADNI Database  Neurology/Imaging

Alzheimer's disease patient's imaging(MRI), clinical, genomic, and biomarker data for the purposes of scientific investigation, teaching, or planning clinical research studies.

http://adni.loni.usc.edu/data-samples/access-data/

RIM-ONE  Ophthalomology

RIM-ONE is a database for optic disc and cup segmentation evaluation by Medical Image Analysis group.

downloads

AmsterdamUMCdb  critical care

Contains data related to 23,376 intensive care unit and high dependency unit admissions at Amsterdam University Medical Center of adult patients from 2003-2016.

https://github.com/AmsterdamUMC/AmsterdamUMCdb/wiki

FDA Adverse Event Reporting System (FAERS)  pharmacy

The FDA Adverse Event Reporting System (FAERS) is a database that contains adverse event reports, medication error reports and product quality complaints resulting in adverse events that were submitted to FDA

 

MESSIDOR: Methods to Evaluate Segmentation and Indexing Techniques in the field of Retinal Ophthalmology  ophthalmology

1200 Retinal image dataset with annotation.

http://www.adcis.net/en/third-party/messidor/

RIGA Dataset :Retinal fundus images for glaucoma analysis  ophthalmology

A de-identified dataset of retinal fundus images for glaucoma analysis (RIGA) derived from three sources with 750 original images and 4500 manual marked images

https://deepblue.lib.umich.edu/data/concern/data_sets/3b591905z

 

High-Resolution Fundus (HRF) Image Database  ophthalmology

The public database contains 15 images of healthy patients, 15 images of patients with diabetic retinopathy and 15 images of glaucomatous patients.

https://www5.cs.fau.de/research/data/fundus-images/

DR HAGIS: Diabetic Retinopathy, Hypertension, Age-related macular degeneration and Glacuoma ImageS  ophthalmology

39 images for development of vessel extraction algorithms suitable for retinal screening programmes.

https://personalpages.manchester.ac.uk/staff/niall.p.mcloughlin/

 

NSRR Datasets:National Sleep Research Resource   pulmonary

Polysomnography dataset from NSRR for sleep studies.Large collection of deidentified physiologic signals perfect for ML development.

https://sleepdata.org/datasets

NLST Datasets: National Cancer Institute   cancer

Datasets from National Cancer Institute of over 54000 patients. They include data on participant characteristics, screening exam results, diagnostic procedures, lung cancer, and mortality. Images from over 75,000 CT screening exams are available. Over 1,200 pathology images from a subset of NLST lung cancer patients (~500 of over 2,000 patients) may be viewed.

https://biometry.nci.nih.gov/cdas/datasets/nlst/

 

The HAM10000 dataset  dermatology

A large collection of multi-source dermatoscopic images of common pigmented skin lesions containing 10000 images.

https://dataverse.harvard.edu/dataset.xhtml?persistentId=doi:10.7910/DVN/DBW86T

Associated publication link below:

The HAM10000 dataset, a large collection of multi-source dermatoscopic images of common pigmented skin lesions

Philipp Tschandl, Cliff Rosendahl & Harald Kittler

 

UCI Machine Learning Repository  general

This open source repository has more than 400 datasets including healthcare(100+) and non-healthcare ones in searchable and categorized format.

http://archive.ics.uci.edu/ml/datasets.php

Centers for Medicare and Medicaid(CMS) datasets with ResDAC link.  general

CMS datasets provide US Medicare and Medicaid datasets.

https://data.cms.gov

ResDAC(The Research Data Assistance Center) provides free support to users of CMS datasets.

https://www.resdac.org/learn

Center for disease control(CDC) Datasets  general

Center for disease control's datasets.Useful for incidence,prevalance of various disorders and mortality data from across the US.

https://data.cdc.gov

 

Healthcare Cost and Utilization Project (HCUP) datasets  general

Agency for Healthcare Research and Quality's HCUP datasets used to identify, track, and analyze US national trends in health care utilization, access, charges, quality, and outcomes.

https://hcup-us.ahrq.gov/databases.jsp

 

NHS datasets   general

UK government's National Health services datasets.NHS choices datasets are useful for NLP and sentiment analysis both for GPs and hospitals.

https://data.gov.uk/dataset/73740ffe-cecb-4cba-afb9-51ea996187a1/nhs-england-nhs-choices-hospitals-patient-comments-and-ratings

OASIS Brain MRI dataset  neuroimaging

Brain MRI datasets from Open Accesss series of Imaging Studies(OASIS).

http://www.oasis-brains.org/#data

 

OpenNEURO  neuro

A free and open platform for sharing MRI, MEG, EEG, iEEG, and ECoG data with over 200 datasets.

https://openneuro.org

 

National Cancer Institute(NCI)-SEER datasets  cancer

Cancer epidemiology data available through NCI's Surveillance,Epidemiology and End Result Program(SEER)

https://seer.cancer.gov/data-software/

 

BROAD Institute's Cancer program datasets  cancer and genomics

Cancer and genomics datasets.

http://portals.broadinstitute.org/cgi-bin/cancer/datasets.cgi

 

MURA  imaging

A dataset of 14,000+ anonymized, radiologist labeled musculoskeletal X-rays from 12,000+ patients from Stanford ML group.

https://stanfordmlgroup.github.io/competitions/mura/

Read their article: https://arxiv.org/abs/1712.06957

 

fastMRI  imaging

1500+ knee MRI anonymized dataset from NYU.

https://fastmri.med.nyu.edu