A non exhaustive list of the public datasets - YJDIFF/Biomedical_datasets GitHub Wiki
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Appendix C A non-exhaustive list of the public datasets. AP: Anthropometric; US: Ultrasound; MCS: Microscopy
| Category | Name | Public year | Availability | Register | Number of samples | Content | Link |
|---|---|---|---|---|---|---|---|
| AP | CAESAR | 1999 | Commercial | 4400 | 3D Anthropometric | http://store.sae.org/caesar/#3dna | |
| AP | MIT | 2008 | public available | Register not requested | 8 | 3D Anthropometric | http://people.csail.mit.edu/drdaniel/mesh_animation/#data |
| AP | SCAPE | 2005 | public available | Register requested | 71 | 3D Anthropometric | https://ai.stanford.edu/~drago/Projects/scape/scape.html |
| Category | Name | Public year | Availability | Register | Number of samples | Content | Link |
|---|---|---|---|---|---|---|---|
| CBCT | Dental CBCT data2-4 | 2016 | public available | Register not requested | 3 | Dental | https://figshare.com/articles/Data3/3404680 https://figshare.com/articles/New_draft_item/3404647 https://figshare.com/articles/New_draft_item/3404647 |
| CT | 3DIRCADb-01 | unknown | public available | Register not requested | 20 | Liver and liver tumor | https://www.ircad.fr/research/3d-ircadb-01/ |
| CT | 3DIRCADb-02 | unknown | public available | Register not requested | 2 | Human Body | https://www.ircad.fr/research/3d-ircadb-02/ |
| CT | 4D-Lung | 2019 | public available | Register not requested | 20 | Lung | https://wiki.cancerimagingarchive.net/display/Public/4D-Lung |
| CT | Computational Anatomy | unknown | Server not accessable | unknown | 640 | Varying | http://www.comp-anatomy.org/wiki/ |
| CT | EXACT09 challenge | 2009 | public available | Register requested | 75 | Chest | http://image.diku.dk/exact/index.php? |
| CT | KITS19 | 2019 | public available | Register requested | 300 | Kidney and tumor | https://kits19.grand-challenge.org/home/ |
| CT | LiTs | 2017 | public available | Register requested | 201 | Liver and liver tumor | https://competitions.codalab.org/competitions/17094 |
| CT | MICCAI SLiver07 | 2007 | public available | Register requested | 30 | Liver | https://sliver07.grand-challenge.org/Home/ |
| CT | SYNAPSE | 2015 | public available | Register requested | 155 | Organs | https://www.synapse.org/# |
| CT | TCIA pancreas-CT | 2016 | public available | Register not requested | 82 | Pancreas | https://wiki.cancerimagingarchive.net/display/Public/Pancreas-CT |
| Category | Name | Public year | Availability | Register | Number of samples | Content | Link |
|---|---|---|---|---|---|---|---|
| MCS | 3D confocal stacks of Arabidopsis thaliana | 2015 | public available | Register not requested | 1 | Arabidopsis thaliana | https://bitbucket.org/jstegmaier/embryomicsbenchmark/downloads/ |
| MCS | Alzheimer disease mouse models | 2018 | public available | Register not requested | unknown | Vessel, Vascular, Alzheimer’s disease | https://doi.org/10.7298/X4FJ2F1D |
| MCS | Cell Tracking Benchmark and the Cell Segmentation Benchmark | 2012 | public available | Register not requested | 16+ sub-datasets | Cell | http://celltrackingchallenge.net/ |
| MCS | ISBI 2013 (SNEMI3D) | 2013 | public available | Register requested | 2 | Mouse Cortex | http://brainiac2.mit.edu/SNEMI3D/ |
| MCS | ISBI 2012 segmentation of Neuronal structures | 2012 | public available | Register requested | 2 | Neurons | http://brainiac2.mit.edu/isbi_challenge/ |
| MCS | Xenopus Laevis stage series: complete | 1994 | public available | Register not requested | 112+ | Xenbase | https://www.xenbase.org/anatomy/alldev.do |
| Category | Name | Public year | Availability | Register | Number of samples | Content | Link |
|---|---|---|---|---|---|---|---|
| MRI | 2018 Atrial Segmentation Challenge | 2018 | No longer available | Register requested | 154 | Cardiac | http://atriaseg2018.cardiacatlas.org/ |
| MRI | ACDC challenge | 2017 | public available | Register requested | 150 | Cardiac | https://www.creatis.insa-lyon.fr/Challenge/acdc/index.html |
| MRI | BraTS-2015 | 2015 | No longer available | Register requested | 274 | Brain | https://www.smir.ch/BRATS/Start2015 |
| MRI | BraTS-2018 | 2018 | public available | Register requested | 461 | Brain | https://www.med.upenn.edu/sbia/brats2018.html |
| MRI | CANDI | 2008 | public available | Submit data request | 103 | Brain | https://www.nitrc.org/projects/candi_share/ |
| MRI | CDEMRIS fibrosis scar challenge dataset | 2016 | public available | Register not requested | 60 | Cardiovascular | https://figshare.com/articles/CDEMRIS_fibrosis_scar_challenge_data_2012/4214532 |
| MRI | HVSMR 2016 | 2016 | public available | Register not requested | 20 | Cardiovascular | http://segchd.csail.mit.edu/ |
| MRI | IBSR18 | 1997 | public available | unknown | 18 | Brain | https://www.nitrc.org/projects/ibsr |
| MRI | IBSR20 | 1997 | public available | Register requested | 20 | Brain | https://www.nitrc.org/projects/ibsr |
| MRI | ISBI 2015 longitudinal MS lesion segmentation challenge | 2015 | public available | Register requested | 21 | Brain | http://iacl.ece.jhu.edu/index.php/MSChallenge |
| MRI | ISLES-2015 | 2015 | public available | Register requested | 64 | Brain | http://www.isles-challenge.org/ISLES2015/ |
| MRI/CT | ISLES-2018 | 2018 | public available | Register requested | 95 | Brain | http://www.isles-challenge.org/ |
| MRI | iSeg 2017 Challenge | 2017 | public available | Register requested | unknown | Brain | http://iseg2017.web.unc.edu/ |
| MRI | IVDM3Seg | 2018 | public available | Register requested | 96 | Intervertebral Disc | https://ivdm3seg.weebly.com/ |
| MRI/CT | Medical Segmentation Decathlon | 2019 | public available | Register not requested | 2,633 | Multi-Organs | http://medicaldecathlon.com/ |
| MRI | MICCAI 2008 MS lesion segmentation challenge | 2008 | public available | Register requested | 43 | Brain | https://www.nitrc.org/projects/msseg/ |
| MRI | MRBrainS13 | 2013 | No longer available | unknown | unknown | Brain | https://mrbrains13.isi.uu.nl/ |
| MRI | MRBrainS18 | 2018 | public available | Register requested | 30 | Brain | https://mrbrains18.isi.uu.nl/ |
| MRI | PROMISE12 | 2012 | public available | Register requested | 80 | Prostate | https://promise12.grand-challenge.org/Home/ |
| MRI | PROSTATEx-2 | 2017 | public available | Register requested | 162 | Prostate | http://spiechallenges.cloudapp.net/competitions/7#learn_the_details |
| MRI | SKI10 | 2010 | No longer available | unknown | 150 | Knee | http://www.ski10.org/ |
| MRI | UK Digital Heart Project | 2010 | public available | Register not requested | unknown | Heart | http://digital-heart.org |
| MRI/CT | VISCERAL-Anatomy3 | 2015 | public available | Register requested | 20 | Whole body | http://www.visceral.eu/benchmarks/ |
| Category | Name | Public year | Availability | Register | Number of samples | Content | Link |
|---|---|---|---|---|---|---|---|
| Neuron | BigNeuron dataset | 2016 | public available | Register not requested | unknown | Neuron | https://www.osti.gov/biblio/1337390-bigneuron-dataset |
| Category | Name | Public year | Availability | Register | Number of samples | Content | Link |
|---|---|---|---|---|---|---|---|
| US | CETUS: Left Ventricle Segmentation in 3D Echocardiography Algorithm Evaluation Platform | 2014 | public available | Register requested | 45 | Cardiac | https://www.creatis.insa-lyon.fr/EvaluationPlatform/CETUS/index.html |