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  • Title: Reinforce: An Ensemble Approach for Inferring PPI Network from AP-MS Data.
    Author: Tian B, Duan Q, Zhao C, Teng B, He Z.
    Journal: IEEE/ACM Trans Comput Biol Bioinform; 2019; 16(2):365-376. PubMed ID: 28534782.
    Abstract:
    Affinity Purification-Mass Spectrometry (AP-MS) is one of the most important technologies for constructing protein-protein interaction (PPI) networks. In this paper, we propose an ensemble method, Reinforce, for inferring PPI network from AP-MS data set. The new algorithm named Reinforce is based on rank aggregation and false discovery rate control. Under the null hypothesis that the interaction scores from different scoring methods are randomly generated, Reinforce follows three steps to integrate multiple ranking results from different algorithms or different data sets. The experimental results show that Reinforce can get more stable and accurate inference results than existing algorithms. The source codes of Reinforce and data sets used in the experiments are available at: https://sourceforge.net/projects/reinforce/.
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