Welcome to MiREDiBase!

MiREDiBase (miRNA Editing Database) is a catalog of validated and putative miRNA editing sites (Adenosine-to-Inosine and Cytosine-to-Uracil) and an online resource for functional prediction of miRNA editing.

How to run MiREDiBase on your local machine.

To try MiREDiBase out on your local machine, proceed as follows:

1. Install Docker and Docker Compose.
2. Download the MiREDiBase GitHub repository.
3. Unzip the data.zip file.
4. Create a directory called mbdata.
5. Within the MiREDiBase directory, modify the .env file setting up the database name, username, and password.
6. Open you Command Prompt/Terminal and go to the MiREDiBase directory.
7. For the first run ever, exec the command docker-compose -f docker-compose.yml up --build -d. The command will create all the required Docker images and run the MiREDiBase application.
8. Once the installation is complete, open your browser and type localhost:8080 to use the MiREDiBase web interface and localhost:9001/docs to try out the RESTful API.
9. When you are done, from within the MiREDiBase directory exec the command docker-compose -f docker-compose.yml down to stop MiREDiBase.
10. You can completely uninstall MiREDiBase by running the command docker-compose rm from within the MiREDiBase directory.

More information about MiREDiBase can be found at link.

---

References

If you have used any of the project code, please cite the following preprint:

Gioacchino P. Marceca, Rosario Distefano, Luisa Tomasello, Alessandro Lagana’, Francesco Russo, Federica Calore, Giulia Romano, Marina Bagnoli, Pierluigi Gasparini, Alfredo Ferro, Mario Acunzo, Qin Ma, Carlo M. Croce, Giovanni Nigita. MiREDiBase: a manually curated database of validated and putative editing events in microRNAs. bioRxiv 2020.09.04.283689v3; doi: https://doi.org/10.1101/2020.09.04.283689