Inferring Disease-Associated Microbes Based on Multi-Data Integration and Network Consistency Projection

Inferring disease-related microbes via HMDA-Pred

How to use the tool?

Just run 'predict_tool.m' to produce the result.

Data set：

interaction.mat：microbe and disease associations matrix

Program：

predict_tool.m：main interface for running the program

GSD.m：calculate Gaussian interaction profile kernel similarity for disease

GSM.m：calculate Gaussian interaction profile kernel similarity for microbe

cosSim.m: calculate cosine similarity for microbe and disease

LKF.m：fusion of Gaussian similarity feature and cosine similarity feature

NCPLDA.m：calculate microbe and disease space projection socres

Rank.m：sorting disease-related microbe scores

Write_file.m：write results to excel

Operating environment：

software：matlab 2016a or later

processor：Intel(R) Xeon(R) CPU E5-1630 v4 @3.70GHz

recommended memory：8G

Citation：

If you use the code of this project, please cite our paper.

@article{2020Inferring,
title={Inferring Disease-Associated Microbes Based on Multi-Data Integration and Network Consistency Projection},
author={Yongxian Fan, Qingqi Zhu, Meijun Chen and Wanru Wang},
journal={Frontiers in Bioengineering and Biotechnology},
volume={8},
year={2020},
}

Contacts：

If you have any questions or comments, please feel free to email augustqq@163.com