A novel method for identifying potential disease-related miRNAs via disease-miRNA-target heterogeneous network
======================= Instructions to DMTHNDM software (version 1.0.0)
Developer: Liang,Ding(Ding520@mail.ustc.edu.cn) from Health Informatics Lab, School of Information Science and Technology, University of Science and Technology of China
4GB memory MATLAB R2011a or later
- /data/known_disease_miRNA_association.txt
- /data/known_miRNA_target_association.txt
The first text file known_disease_miRNA_association.txt is a table of known experimental verification of diseases-miRNAs associations. The second text file known_miRNA_target_association.txt is a table of known experimental verification of miRNAs-targets associations .
To analyze these data on DMTHNDM to further identify potential disease-related miRNA candidates , you should input the appropriate code in the matlab Command Window:
D_M=textread('known_disease_miRNA_association.txt');
M_T=textread('known_miRNA_target_association.txt');
DMTHNDM(D_M,M_T,lamda)
%lamda=0.7
Then, the predicted results will be automatically saved in the excel table ./final prediction candidate pairs.xls/.
================================================================================================
| FILE NAME | DESCRIPTION |
=================================================================================================
|known_disease_miRNA |The known disease_miRNA associations is represented by adjacency matrix |
|association.txt | D_M in our method,which shows binary associations between diseases and |
| |miRNAs.1 represents disease j is associated with miRNA i,otherwise 0. |
-------------------------------------------------------------------------------------------------
|known_miRNA_target |The miRNA_target associations are represented by adjacency matrix M_T in|
|association.txt |in our method,which shows binary associations between miRNAs and targets|
| |.And 1 represents miRNA j is associated with target i,otherwise 0. |
-------------------------------------------------------------------------------------------------
-------------------------------------------------------------------------------------------------
The configurations of DMTHNDM can be changed in script file ./DMTHNDM.m, and the descriptions of these parameters are provided below:
=================================================================================================
| PARAMETER NAME | DESCRIPTION |
=================================================================================================
| |parameter λ∈[0, 1] is tunable and used to balance relative importance |
| lamda_λ |between the diseases contribution and targets contribution. The default
| | number is 0.7. |
-------------------------------------------------------------------------------------------------
The descriptions of output variables of DMTHNDM are provided below:
==================================================================================================
| VARIABLE NAME | DESCRIPTION |
==================================================================================================
| predicted_results |Predicted_results table shows the predicted results of potential disease |
| |related-miRNAs candidates in descending order.In order to show the predi-|
| |ctions more clearly,we release all potential disease-related candidate |
| |miRNAs in "final prediction candidate pairs.xls". |
--------------------------------------------------------------------------------------------------
|relevance_score(Rscore|The Rscore vector represents the relevance score of disease-related miRNA|
|) | computed by our method, and a higher value of a certain Rscore presents |
| |a larger potential of the miRNA to be the disease candidates. |
-------------------------------------------------------------------------------------------------
Other notes and output results can be available in the ./DMTHNDM.m.
Please feel free to contact us if you need any help: Ding520@mail.ustc.edu.cn