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Awesome Machine Learning in Biomedical(Healthcare) Imaging

🌈A list of awesome selected resources towards the application of machine learning in Biomedical/Healthcare Imaging, inspired by awesome-php.

If you also want to contribute to this list, feel free to send me a pull request or contact me🙌@XindiWu.

Table of Contents

Courses

Bioimage Analysis

Harvard: Bio-Image Analysis Course

Stanford: Introduction to Bioimaging

CMU: Bioimage Informatics

Caltech: Data Analysis in the Biological Sciences

Biomedical Image Analysis

University of Nebraska: Introduction to Biomedical Imaging and Image Analysis

Stanford: Computational Methods for Biomedical Image Analysis and Interpretation

Dartmouth College: Medical Image Visualization and Analysis

UCLA: Signal and Image Processing for Biomedicine

MIT: Biomedical Signal and Image Processing

NYU: Biomedical Imaging II

UCSD: Introduction to biomedical imaging and sensing

ILLINOIS: Biomedical imaging

Medical image analysis

Johns Hopkins: Applied Medical Image Processing

UCB: Medical Imaging Signals and Systems

Brown University: Medical Image Analysis

MIT: Principles of Medical Imaging

Purdue: MEDICAL IMAGING DIAGNOSTIC TECHNOLOGIES

University of Michigan Ann Arbor: MEDICAL IMAGING SYSTEMS

University of Florida: Introduction to Biomedical Image Analysis and Imaging Informatics

CMU: Methods In (Bio)Medical Image Analysis

Conferences

2019 MICCAI: 22nd International Conference on Medical Image Computing and Computer Assisted Intervention

2019 AIME: Artificial Intelligence in Medicine

2019 AMIA: AMIA Symposium

2020 RECOMB: International Conference on Research in Computational Molecular Biology

2020 PSB: Pacific Symposium on Biocomputing

2020 ICHI: IEEE International Conference on Healthcare Informatics

2020 CMIMI: Conference on Machine Intelligence in Medical Imaging

2019 ISBI: The IEEE International Symposium on Biomedical Imaging

Journal Collections

BMC: Artificial intelligence in biomedical imaging

JAMA: Deep Learning and Artificial Intelligence in Health Care

PLOS: Machine Learning in Health and Biomedicine

Nature Medicine: Digital Medicine

IEEE: Journal of Biomedical and Health Informatics

Datasets

External Link Collections: https://github.com/beamandrew/medical-data

Kaggle: Medical Image

Kaggle: Biology Image

The Cancer Imaging Archive (TCIA)

Radiology (Ultrasound, Mammographs, X-Ray, CT, MRI, fMRI, etc.)

Center for Invivo Microscopy (CIVM), Embrionic and Neonatal Mouse (H&E, MR) user guide

Collaborative Informatics and Neuroimaging Suite (COINS)

Alzheimer’s Disease Neuroimaging Initiative (ADNI)

The Open Access Series of Imaging Studies (OASIS)

Breast Cancer Digital Repository

DDSM: Digital Database for Screening Mammography

The Mammographic Image Analysis Society (MIAS) mini-database

Mammography Image Databases 100 or more images of mammograms with ground truth

NLM HyperDoc Visible Human Project color, CAT and MRI image samples - over 30 images

CT Scans for Colon Cancer

Microscopy (Cell, Cytology, Biology, Protein, Molecular, Fluorescence, etc.)

BDGP images from the FlyExpress database

The UCSB Bio-Segmentation Benchmark dataset

Pap Smear database

BIICBU Biological Image Repository

RNAi dataset

Chinese Hamster Ovary cells (CHO) dataset

Locate Endogenus mouse sub-cellular organelles (END) databaset

2D HeLa dataset (HeLa) datgaset

Allen Brain Atlas

1000 Functional Connectomes Project

The Cell Centered Database (CCDB)

The Encyclopedia of DNA Elements (ENCODE)

The Human Protein Atlas

DRIVE: Digital Retinal Images for Vessel Extraction / Ground truth

El Salvador Atlas of Gastrointestinal VideoEndoscopy Images and Videos of his-res of studies taken from Gastrointestinal

Histology and Histopathology

The Histology Image Dataset (histologyDS)

The Cancer Genome Atlas (TCGA)

International Cancer Genome Consortium / Data portal

Stanford Tissue Microarray Database (TMA)

MITOS dataset

DPA’s Whole Slide Imaging Repository

Atlas of bleast Histology

ITK Analysis of Large Histology Datasets

Histology Photo Album

Slide Library of Virtual pathology, University of Leeds

Tissue Acquisition and Banking Services (TABS) of the NYU Experimental Pathology Core Facilities

Aperio Images

HAPS Histology Image Database

NIH: chest x-ray datasets

Tasks: (Link: https://paperswithcode.com/area/medical)

Medical Image Segmentation

EEG

Electrocardiography (ECG)

Drug Discovery

Cancer

Sleep Quality

Medical Image Registration

Disease Prediction

Mortality Prediction

Medical Image Generation

Protein Secondary Structure Prediction

Medical Diagnosis

Length-of-stay prediction

Seizure Detection

Skin

Histopathological Image Classification

Mitosis Detection

Computational Phenotyping

Epidemiology

Lung Disease Classification

Diabetic Retinopathy Detection

X-Ray

Medical Relation Extraction

Metal Artifact Reduction

Photoplethysmography (PPG)

Lung Nodule Classification

Pneumonia Detection

Surgical Skills Evaluation

Readmission Prediction

Automatic Sleep Stage Classification

Eeg Decoding

Skull Stripping

Participant Intervention Comparison Outcome Extraction

Patient Outcomes

Medical Report Generation

Knee Osteoarthritis Prediction

Multi-Label Classification Of Biomedical Texts

breast density classification

Medical Super-Resolution

Molecule Interpretation

Mammogram

Cancer Metastasis Detection

Pain Intensity Regression

Electromyography (EMG)

Surgical Gesture Recognition

Protein Function Prediction

epilepsy prediction

Seizure prediction

White Matter Fiber Tractography

Single-cell modeling

Age-Related Macular Degeneration Classification

Sequential Diagnosis

Ecg Risk Stratification

Diabetes Prediction

Magnetic Resonance Fingerprinting

Tomography

Atrial Fibrillation

Malaria Risk Exposure Prediction

Muscular Movement Recognition

Medical Code Prediction

Motion Correction In Multishot Mri

Chemical Reaction Prediction

Ultrasound

Competitions:

Grand Challenges in Biomedical Image Analysis

The Cancer Imaging Archive (TCIA) Public Access

Competitions in Kaggle

The MICCAI 2014 Machine Learning Challenge

The ISBI 2019 Challenges

Medical Segmentation Decathlon