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A multiobjective multi-view cluster ensemble technique: Application in patient subclassification

机译:多目标多视图聚类集成技术:在患者分类中的应用

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摘要

Recent high throughput omics technology has been used to assemble large biomedical omics datasets. Clustering of single omics data has proven invaluable in biomedical research. For the task of patient sub-classification, all the available omics data should be utilized combinedly rather than treating them individually. Clustering of multi-omics datasets has the potential to reveal deep insights. Here, we propose a late integration based multiobjective multi-view clustering algorithm which uses a special perturbation operator. Initially, a large number of diverse clustering solutions (called base partitionings) are generated for each omic dataset using four clustering algorithms, viz., k means, complete linkage, spectral and fast search clustering. These base partitionings of multi-omic datasets are suitably combined using a special perturbation operator. The perturbation operator uses an ensemble technique to generate new solutions from the base partitionings. The optimal combination of multiple partitioning solutions across different views is determined after optimizing the objective functions, namely conn-XB, for checking the quality of partitionings for different views, and agreement index, for checking agreement between the views. The search capability of a multiobjective simulated annealing approach, namely AMOSA is used for this purpose. Lastly, the non-dominated solutions of the different views are combined based on similarity to generate a single set of non-dominated solutions. The proposed algorithm is evaluated on 13 multi-view cancer datasets. An elaborated comparative study with several baseline methods and five state-of-the-art models is performed to show the effectiveness of the algorithm.
机译:最近的高通量组学技术已被用于组装大型生物医学组学数据集。单一组学数据的聚类在生物医学研究中已被证明具有不可估量的价值。对于患者分类,应该将所有可用的组学数据综合使用,而不是单独进行处理。多组学数据集的聚类有可能揭示深刻的见解。在这里,我们提出了一种基于后期集成的多目标多视图聚类算法,该算法使用了一种特殊的扰动算子。最初,使用四种聚类算法(即k均值,完全链接,光谱和快速搜索聚类)为每个omic数据集生成大量不同的聚类解决方案(称为基本分区)。使用特殊的扰动算子可以适当地组合多组数据集的这些基本分区。扰动算子使用集成技术从基本分区中生成新的解。在优化目标函数(即conn-XB)(用于检查不同视图的分区质量)和协议索引(用于检查视图之间的协议一致性)之后,确定跨不同视图的多个分区解决方案的最佳组合。为此,使用了多目标模拟退火方法(即AMOSA)的搜索功能。最后,基于相似度将不同视图的非支配解组合在一起,以生成一组非支配解。该算法在13个多视图癌症数据集上进行了评估。用几种基准方法和五个最新模型进行了详尽的比较研究,以证明该算法的有效性。

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