Open Source Imaging Data

General Digital Pathology Image Repositories

• The Cancer Genome Atlas (TCGA) • Whole slide images for various cancer types, including lung, breast, and prostate.

• The Cancer Imaging Archive (TCIA) • Medical imaging data, including pathology whole slide images linked to genomic data.

• National Cancer Institute Imaging Data Commons (NCI-IDC) • Broad repository of imaging data, including histopathology images.

• Pathology AI Platform (PAIP) Challenge Dataset • Liver cancer pathology dataset for AI-based segmentation and classification.

• Grand Challenge • Hosts numerous biomedical imaging challenges with datasets spanning various pathology applications.

• International Cancer Genome Consortium (ICGC) • Genomic data with associated histopathology images across multiple cancer types.

• OpenPathology • Digital pathology slides with annotations from multiple sources.

Pathology Image Datasets

• CAMELYON16 & CAMELYON17 (Breast Cancer Lymph Node Metastases Detection) • Annotated dataset for training AI models in detecting metastases in lymph nodes.

• Lung and Colon Cancer Histopathology Dataset (LC25000) • Lung and colon cancer histology slides for classification.

• BACH (Breast Cancer Histology Challenge Dataset) • Whole slide images and patches of breast tissue for AI research.

• BreakHis (Breast Cancer Histopathological Database) • Benign and malignant breast tumor images.

• Lizard Dataset (Colorectal Cancer Epithelium and Gland Segmentation) • Segmentation dataset for glandular structures in colorectal tissue.

• Stanford Digital Repository - CRCHistoPhenotypes • Contains 100,000 annotated cells in colorectal cancer histology images.

• PanNuke Dataset • Multi-organ, multi-disease dataset with over 200,000 nuclei annotations across 19 tissue types.

• TUPAC16 (Tumor Proliferation Assessment Challenge) • Tumor grading dataset with annotations.

Multiplex & Advanced Imaging Datasets

• HuBMAP - Human BioMolecular Atlas Program • High-resolution multiplexed imaging data from human tissues.

• Allen Cell & Structure Segmenter (Microscopy + Histology Data) • Multiplexed microscopy and histology data.

• The Human Protein Atlas - Pathology Atlas • Immunohistochemical and fluorescence microscopy images of human tissues.

• GTEx (Genotype-Tissue Expression) • Normal tissue samples with matched molecular data across multiple organs.

Software Testing & Benchmarking Datasets

• OpenSlide Demo Datasets • Sample whole-slide images in different formats.

• MIDOG (Microscopy Image Dataset for Object Detection) • Annotated microscopy image dataset for object detection.

• Broad Bioimage Benchmark Collection • Diverse collection of biological images with ground truth annotations for benchmarking.

• HistomicsUI Public Datasets • Annotated histopathology image collections for algorithm development and testing.