Our objective is to make life easier for multidisciplinary teams who have to deal with very large images (big image data).
More specifically, the CYTOMINE project (started in 2010) is continuously developing a rich internet application using modern web technologies, databases, and machine learning to foster active and distributed collaboration and ease large-scale image exploitation. Our software is e.g. being used by life scientists to help them better evaluate drug treatments or understand biological processes directly from whole-slide tissue images, by pathologists to share and ease their diagnosis, and by teachers and students for pathology training purposes.
Although our initial focus was on biomedical research in cytology and histology whole-slide images, we are developing a generic software that is useful for other types of high-dimensional imaging data from various fields (e.g. botany, geology, astronomy, environmental biology, ...). To ease its reuse in any context, Cytomine is open-source.
If you are looking for collaborators in image-based projects (not restricted to biomedical research), please contact us.
In close collaboration with various researchers, we used our web-based software platform and image recognition algorithms for various biomedical projects. At the end of 2015, our platform was hosting tens of thousands of images for more than one hundred users within our GIGA research center and beyond.
We kindly ask you to cite our (Marée et al., Bioinformatics 2016) paper when using our software.
(Feb. 2017) In addition to our research unit, we launched Cytomine.coop, a social cooperative to serve the community and to provide services on top of Cytomine open-source software. Learn more about our services and our open company philosophy on Cytomine.coop.
(Jan 2017) Cytomine will be used for the first worldwide massive online course (MOOC) in french on histology. It is free of charge and organized by University of Liege and FUN platform. More info, course teaser, and registration.
(Sept 2016) We are involved in the NEUBIAS COST Action project for bioimage analysis. If you are interested to come and visit us to learn and integrate Cytomine into your project, please consider to apply for mobility grants for short-term scientific missions (available till 2020).
(Jan. 2016) Our Cytomine paper is formally accepted for publication in Bioinformatics journal.
Cytomine is now released under an open-source software license and available on Github (see instructions below).
You can still request an account on our demo server.
(Jun. 2015) Cytomine has been chosen by the Breast International Group (BIG) for its AURORA program. AURORA is a large, multinational, collaborative metastatic breast cancer molecular screening program that will characterize through next generation sequencing and other techniques the primary tumors and metastatic lesions of 1300 patients, and will follow these patients for up to 10 years. This will allow the enrolment of patients in innovative clinical trials for targeted agents, and a vast improvement of the understanding of metastatic breast cancer.
(Oct. 2014) The HISTOWEB project (October 2014-2017, funded by Wallonia) is extending the platform for teaching purposes. A preliminary implementation is already accessible for 4000 students at the University of Liege.
(Sept. 2014) A vulgarization of some our research is available on University of Liege Reflexions website
(Oct. 2010) Cytomine kick-off.
Cytomine is released under an open-source license that allow any individual to install, inspect, and extend the application. It is available on Github. Follow our installation instructions (on Linux Ubuntu).
When using our software, you agree to cite our website url (www.cytomine.be) and publications in all your related work (publications, studies, oral presentations). In particular, you agree to cite our (Marée et al., Bioinformatics 2016) paper and to use our logo when appropriate
If you want to visit our team to learn more about Cytomine, please contact us to organize a research visit. There are mobility grants for short-term scientific missions through the NEUBIAS COST Action project.