- Contact: Ruibang Luo, Shumin Li
- Email: rbluo@cs.hku.hk, lishumin@connect.hku.hk
Mirtrons, a vital category of non-canonical microRNAs (miRNAs) originating from exon-intron boundaries through splicing mechanisms, play crucial roles in cellular processes. However, existing databases lack the latest data and structural information, hindering understandings of mirtron formation and functions.
MirtronStructDB is an online database addressing these gaps by incorporating over 350 novel mirtrons. Significantly, it provides corresponding predicted RNA secondary structures, offering a deeper understanding of the functional roles and mechanisms of all mirtrons. This enhances previous repositories, offering a total of 4,209 mirtron records spanning 25 species from 46 publications. Our database contributes for unraveling patterns and functions in mirtrons across species and diverse structural features. MirtronStructDB allows users to freely browse, search, visualize, and download data via a user-friendly interface.
In this repo, we provide the source code of the implementation of mirtronStructDB based on the flask framework.
MirtronStructDB is available through the online web application
git clone https://github.com/HKU-BAL/msdb-flask/cd msdb-flask
conda env create -f msdb.ymlmkdir db
flask db init
flask db migrate -m "db init"
flask db upgradeexport IMG_DIR=YOUR_MIRTRON_HIGH_RESOLUTION_PATH
export SECRET_KEY=YOUR_SECRET_KEY
export MAIL_USERNAME=YOUR_MAIL_ADDR
export MAIL_PASSWORD=YOUR_MAIL_PSW
export ADMIN_MAIL=ADMIN_MAIL_ADDRgunicorn -w 2 -b 0.0.0.0:5555 wsgi:app --daemon
#change the port as you preferred
And open http://localhost:5555/ to access the application.
- If you would like to report new mirtron samples, please contact admins