A Collaboration Network Model with Multiple Evolving Factors

To describe the empirical data of collaboration networks, several evolving mechanisms have been proposed, which usually introduce different dynamics factors controlling the network growth. These models can reasonably reproduce the empirical degree distributions for a number of we11-studied real-world collaboration networks. On the basis of the previous studies, in this work we propose a collaboration network model in which the network growth is simultaneously controlled by three factors, including partial preferential attachment, partial random attachment and network growth speed. By using a rate equation method, we obtain an analytical formula for the act degree distribution. We discuss the dependence of the act degree distribution on these different dynamics factors. By fitting to the empirical data of two typical collaboration networks, we can extract the respective contributions of these dynamics factors to the evolution of each networks.

Collaborative Matrix Factorization with Soft Regularization for Drug-Target Interaction Prediction

Identifying the potential drug-target interactions(DTI)is critical in drug discovery.The drug-target interaction prediction methods based on collaborative filtering have demonstrated attractive prediction performance.However,many corresponding models cannot accurately express the relationship between similarity features and DTI features.In order to rationally represent the correlation,we propose a novel matrix factorization method,so-called collaborative matrix factorization with soft regularization(SRCMF).SRCMF improves the prediction performance by combining the drug and the target similarity information with matrix factorization.In contrast to general collaborative matrix factorization,the fundamental idea of SRCMF is to make the similarity features and the potential features of DTI approximate,not identical.Specifically,SRCMF obtains low-rank feature representations of drug similarity and target similarity,and then uses a soft regularization term to constrain the approximation between drug(target)similarity features and drug(target)potential features of DTI.To comprehensively evaluate the prediction performance of SRCMF,we conduct cross-validation experiments under three different settings.In terms of the area under the precision-recall curve(AUPR),SRCMF achieves better prediction results than six state-of-the-art methods.Besides,under different noise levels of similarity data,the prediction performance of SRCMF is much better than that of collaborative matrix factorization.In conclusion,SRCMF is robust leading to performance improvement in drug-target interaction prediction.