{"id":13427658,"url":"https://github.com/sfikas/medical-imaging-datasets","last_synced_at":"2026-01-28T10:31:48.165Z","repository":{"id":37884782,"uuid":"90966138","full_name":"sfikas/medical-imaging-datasets","owner":"sfikas","description":"A list of Medical imaging datasets.","archived":false,"fork":false,"pushed_at":"2024-09-12T13:11:08.000Z","size":47,"stargazers_count":2383,"open_issues_count":1,"forks_count":421,"subscribers_count":60,"default_branch":"master","last_synced_at":"2025-04-14T12:03:09.522Z","etag":null,"topics":["image-dataset","medical-imaging"],"latest_commit_sha":null,"homepage":"","language":null,"has_issues":true,"has_wiki":null,"has_pages":null,"mirror_url":null,"source_name":null,"license":null,"status":null,"scm":"git","pull_requests_enabled":true,"icon_url":"https://github.com/sfikas.png","metadata":{"files":{"readme":"README.md","changelog":null,"contributing":null,"funding":null,"license":null,"code_of_conduct":null,"threat_model":null,"audit":null,"citation":null,"codeowners":null,"security":null,"support":null,"governance":null,"roadmap":null,"authors":null,"dei":null,"publiccode":null,"codemeta":null}},"created_at":"2017-05-11T10:14:19.000Z","updated_at":"2025-04-14T01:41:12.000Z","dependencies_parsed_at":"2024-06-04T19:00:06.189Z","dependency_job_id":null,"html_url":"https://github.com/sfikas/medical-imaging-datasets","commit_stats":null,"previous_names":[],"tags_count":0,"template":false,"template_full_name":null,"purl":"pkg:github/sfikas/medical-imaging-datasets","repository_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/sfikas%2Fmedical-imaging-datasets","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/sfikas%2Fmedical-imaging-datasets/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/sfikas%2Fmedical-imaging-datasets/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/sfikas%2Fmedical-imaging-datasets/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/sfikas","download_url":"https://codeload.github.com/sfikas/medical-imaging-datasets/tar.gz/refs/heads/master","sbom_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/sfikas%2Fmedical-imaging-datasets/sbom","scorecard":null,"host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":286080680,"owners_count":28844014,"icon_url":"https://github.com/github.png","version":null,"created_at":"2022-05-30T11:31:42.601Z","updated_at":"2026-01-28T07:39:25.367Z","status":"ssl_error","status_checked_at":"2026-01-28T07:39:24.487Z","response_time":57,"last_error":"SSL_connect returned=1 errno=0 peeraddr=140.82.121.5:443 state=error: unexpected eof while reading","robots_txt_status":"success","robots_txt_updated_at":"2025-07-24T06:49:26.215Z","robots_txt_url":"https://github.com/robots.txt","online":false,"can_crawl_api":true,"host_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub","repositories_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories","repository_names_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repository_names","owners_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners"}},"keywords":["image-dataset","medical-imaging"],"created_at":"2024-07-31T01:00:36.212Z","updated_at":"2026-01-28T10:31:48.150Z","avatar_url":"https://github.com/sfikas.png","language":null,"funding_links":[],"categories":["Uncategorized","Datasets","Others"],"sub_categories":["Uncategorized"],"readme":"# medical-imaging-datasets\n\n* A list of Medical imaging datasets. Source : https://sites.google.com/site/aacruzr/image-datasets\n* An additional, possibly overlapping list can be found at : https://github.com/beamandrew/medical-data\n\n### Multimodal databases\n\n* Center for Invivo Microscopy (CIVM), Embrionic and Neonatal Mouse (H\u0026E, MR) http://www.civm.duhs.duke.edu/devatlas/ \nuser guide: http://www.civm.duhs.duke.edu/devatlas/UserGuide.pdf\n* LONI image data archive https://ida.loni.usc.edu/services/Menu/IdaData.jsp?project=\n* Radiology (Ultrasound, Mammographs, X-Ray, CT, MRI, fMRI, etc.)\n* Collaborative Informatics and Neuroimaging Suite (COINS) https://portal.mrn.org/micis/index.php?subsite=dx\n* The Cancer Imaging Archive (TCIA) http://www.cancerimagingarchive.net/ (Collections)\n* Alzheimer’s Disease Neuroimaging Initiative (ADNI) http://adni.loni.ucla.edu/\n* The Open Access Series of Imaging Studies (OASIS) http://www.oasis-brains.org/\n* Breast Cancer Digital Repository https://bcdr.eu/\n* DDSM: Digital Database for Screening Mammography http://marathon.csee.usf.edu/Mammography/Database.html\n* The Mammographic Image Analysis Society (MIAS) mini-database http://peipa.essex.ac.uk/info/mias.html\n* Mammography Image Databases 100 or more images of mammograms with ground truth. Additional images available by request, and links to several other mammography databases are provided http://marathon.csee.usf.edu/Mammography/Database.html\n* NLM HyperDoc Visible Human Project color, CAT and MRI image samples - over 30 images http://www.nlm.nih.gov/research/visible/visible_human.html\n* CT Scans for Colon Cancer https://wiki.cancerimagingarchive.net/display/Public/CT+COLONOGRAPHY#e88604ec5c654f60a897fa77906f88a6\n* [[BreastScreening](http://breastscreening.github.io/)] UTA4: Breast Cancer Medical Imaging DICOM Files Dataset \u0026 Resources (MG, US and MRI) https://github.com/MIMBCD-UI/dataset-uta4-dicom\n* [[MIMBCD-UI](http://mimbcd-ui.github.io/)] UTA7: Breast Cancer Medical Imaging DICOM Files Dataset \u0026 Resources (MG, US and MRI) https://github.com/MIMBCD-UI/dataset-uta7-dicom\n* [[Facebook AI + NYU FastMRI](https://fastmri.org/dataset/)] includes two types of MRI scans: knee MRIs and the brain (neuro) MRIs, containing training, validation, and masked test sets. Also includes PyTorch data loaders in open-sourced [GitHub Repository](https://github.com/facebookresearch/fastMRI/)\n* BCNB: Early Breast Cancer Core-Needle Biopsy WSI Dataset, https://bupt-ai-cz.github.io/BCNB/, https://github.com/bupt-ai-cz/BALNMP#bcnb-dataset\n* National Cancer Institute Imaging Data Commons (IDC) https://portal.imaging.datacommons.cancer.gov/explore/\n\n### Histology, Histopathology (H\u0026E, IHQ) \u0026 Microscopy (Cell, Cytology, Biology, Protein, Molecular, Fluorescence)\n\n* Pap Smear image database #1 (\"SIPAKMed\") https://www.cse.uoi.gr/~marina/sipakmed.html\n* Pap Smear image database #2 https://www.cs.uoi.gr/~marina/data_set_TITB.zip\n* Pap Smear image database #3 http://mde-lab.aegean.gr/index.php/downloads\n* The Cancer Genome Atlas (TCGA) http://cancergenome.nih.gov/ https://tcga-data.nci.nih.gov/tcga/\n* International Cancer Genome Consortium http://icgc.org, (Data portal) http://dcc.icgc.org/\n* Stanford Tissue Microarray Database (TMA) http://tma.im\n* MITOS dataset http://www.ipal.cnrs.fr/event/icpr-2012\n* DPA’s Whole Slide Imaging Repository https://digitalpathologyassociation.org/whole-slide-imaging-repository\n* ITK Analysis of Large Histology Datasets http://www.na-mic.org/Wiki/index.php/ITK_Analysis_of_Large_Histology_Datasets\n* Histology Photo Album http://www.histology-world.com/photoalbum/thumbnails.php?album=52\n* Slide Library of Virtual pathology, University of Leeds http://www.virtualpathology.leeds.ac.uk/\n* BDGP images from the FlyExpress database www.flyexpress.net\n* The UCSB Bio-Segmentation Benchmark dataset http://www.bioimage.ucsb.edu/research/biosegmentation\n* Histology (CIMA) dataset http://cmp.felk.cvut.cz/~borovji3/?page=dataset\n* ANHIR dataset https://anhir.grand-challenge.org/\n* Genome RNAi dataset http://www.genomernai.org/\n* Chinese Hamster Ovary cells (CHO) dataset http://www.chogenome.org/data.html\n* Allen Brain Atlas http://www.brain-map.org/\n* 1000 Functional Connectomes Project http://fcon_1000.projects.nitrc.org/\n* The Cell Centered Database (CCDB) https://library.ucsd.edu/dc/collection/bb5940732k\n* The Encyclopedia of DNA Elements (ENCODE) http://genome.ucsc.edu/ENCODE/ \nuser guide: http://www.plosbiology.org/article/info:doi/10.1371/journal.pbio.1001046\n* The Human Protein Atlas: http://www.proteinatlas.org/\n* El Salvador Atlas of Gastrointestinal VideoEndoscopy Images and Videos of hi-res of studies taken from Gastrointestinal Video endoscopy http://www.gastrointestinalatlas.com/\n* BCNB: Early Breast Cancer Core-Needle Biopsy WSI Dataset, https://bupt-ai-cz.github.io/BCNB/, https://github.com/bupt-ai-cz/BALNMP#bcnb-dataset\n* BCI: Breast Cancer Immunohistochemical Image Generation Dataset, https://bupt-ai-cz.github.io/BCI/, https://github.com/bupt-ai-cz/BCI\n\n### Databases you can use for benchmarking \n\n* http://peipa.essex.ac.uk/benchmark/databases/\n* http://mulan.sourceforge.net/datasets-mlc.html\n* Datasets reporting formats for pathologists http://www.rcpath.org/publications-media/publications/datasets\n\n### State of the art / Challenges\n\n* Grand Challenges in Medical Image Analysis https://grand-challenge.org/\n* Challenges in global health and development problems https://grandchallenges.org/#/map\n* Current state of the art of most used computer vision datasets: Who is the best at X? http://rodrigob.github.io/are_we_there_yet/build/\n* Automatic Non-rigid Histological Image Registration (ANHIR) challenge https://anhir.grand-challenge.org/\n","project_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fsfikas%2Fmedical-imaging-datasets","html_url":"https://awesome.ecosyste.ms/projects/github.com%2Fsfikas%2Fmedical-imaging-datasets","lists_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fsfikas%2Fmedical-imaging-datasets/lists"}