MINIMDA

Predicting miRNA-disease associations via learning multimodal networks and fusing mixed neighborhood information

Requirements

• python==3.7
• dgl==0.6.1
• networkx==2.5
• numpy==1.16.6
• scikit-learn==0.20.3
• pytorch==1.5.0
• tqdm==4.15.0

File

data

The data files needed to run the model, which contain HMDDv2.0 and HMDDv3.2.

• disease semantic similarity matrix 1.txt and disease semantic similarity matrix 2.txt: Two kinds of disease semantic similarity
• miRNA functional similarity matrix.txt: MiRNA functional similarity
• known disease-miRNA association number.txt:Validated mirNA-disease associations
• disease number.txt: Disease id and name
• miRNA number.txt: MiRNA id and name

result

MINIMDA cross validation results.

code

• eval.py: The startup code of the program
• train.py: Train the model
• minimda.py: Structure of the model
• utils.py: Methods of data processing

Usage

• download code and data
• execute python eval.py