1. Make sure you have installed java in your computer. If not, please
download: here
2. Download the package to anywhere in your computer. The source code is
here: here
3. Uncompress the package:
mirnaDetect_SourceCode.zip
4. Before running the program, please Read readme.txt.
3. Online Server—miRNApre:
This online pre-miRNA classification
system is written based on our proposed machine learning
algorithm. Using this online server, one can predict the given sequences as
real pre-miRNAs or not.
The online service of our classifier
method is available (here).
4. Feature Extraction Algorithm
In the software ¡°mirnaDetect¡±,
we propose a novel feature extraction algorithm that represents each RNA sequence
with a 98-D feature vector. The proposed feature extraction algorithm is
written with JAVA language and has been packaged in a JAR. Users can download the JAR package (here), and Run the JAR package with the command ¡°Java -jar Extract98FeaturesForMiRNA.jar YourOwnFile¡±
, where YourOwnFile means the fasta
file you want to extract features from.
5. Datasets:
The datasets used in our paper can be downloaded below:
(1) training set and
testing set (here).
(2) the
high-quality negative set(here).
(3) the feature set (here).
6. Citation:
1. Wei L, Liao M, Gao Y, Ji R, He Z, Zou Q. Improved and promising identification of human microRNAs by incorporating a high-quality negative set[J]. IEEE/ACM Transactions on Computational Biology and Bioinformatics, 2014, 11(1): 192-201.
2. Wei L, Huang Y, Qu Y, Jiang Y, Quan Z. Computational analysis of miRNA target identification[J]. Current Bioinformatics, 2012, 7(4): 512-525.