Firefly Clustering Method for Mining Protein Complexes

机译：萤火虫聚类挖掘蛋白质复合物的方法

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摘要

It is a hot research to explore protein complexes which are closely related to biological processes from the biological network. As a novel swarm intelligence optimization algorithm, the firefly algorithm (FA) has been verified to solve many optimization problems. In this study, we transform the protein clustering problem into an optimization problem in protein-protein interaction (PPI) network. A new method for mining protein complexes based on the firefly algorithm was proposed, called FC. A new objective function was proposed to find the high cohesion and low coupling clusters. A thorough comparison completed for different protein clustering methods has been carried out. The clustering results show that FC method outperforms the other state-of-the-art methods in accuracy of detecting complexes from PPI network.

机译：探索与生物网络中的生物过程密切相关的蛋白质复合物是一项热门研究。作为一种新颖的群体智能优化算法，萤火虫算法（FA）已被验证可以解决许多优化问题。在这项研究中，我们将蛋白质聚类问题转化为蛋白质-蛋白质相互作用（PPI）网络中的优化问题。提出了一种基于萤火虫算法的蛋白质复合物的提取方法。提出了一个新的目标函数来寻找高内聚和低耦合簇。对不同的蛋白质聚类方法进行了彻底的比较。聚类结果表明，FC方法在从PPI网络中检测复合物的准确性方面优于其他最新方法。

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《International conference on swarm intelligence》|2017年|601-610|共10页
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Yuchen Zhang; Xiujuan Lei; Ying Tan;
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Firefly clustering; Protein complexes; Dynamic PPI network; Clustering objective function;

机译：萤火虫群集;蛋白质复合物;动态PPI网络;聚类目标函数;

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专利

1. A novel graph clustering method with a greedy heuristic search algorithm for mining protein complexes from dynamic and static PPI networks [J] . Information Sciences: An International Journal . 2020,第期

机译：一种新型绘图聚类方法，具有贪婪启发式搜索算法，用于挖掘动态和静态PPI网络的蛋白质复合物
2. Protein complex identification through Markov clustering with firefly algorithm on dynamic protein-protein interaction networks [J] . Lei Xiujuan, Wang Fei, Wu Fang-Xiang, Information Sciences: An International Journal . 2016,第Null期

机译：动态蛋白质-蛋白质相互作用网络中萤火虫算法的马尔可夫聚类识别蛋白质复合物
3. Predicting protein complexes from weighted protein-protein interaction graphs with a novel unsupervised methodology: Evolutionary enhanced Markov clustering [J] . Theofilatos Konstantinos, Pavlopoulou Niki, Papasavvas Christoforos, Artificial intelligence in medicine . 2015,第3期

机译：使用新型无监督方法从加权蛋白质-蛋白质相互作用图预测蛋白质复合物：进化增强型马尔可夫聚类
4. Firefly Clustering Method for Mining Protein Complexes [C] . Yuchen Zhang, Xiujuan Lei, Ying Tan International Conference on Swarm Intelligence . 2017

机译：用于采矿蛋白质复合物的萤火虫聚类方法
5. Application and development of molecular dynamics methods to examine the energy landscapes of protein folding and transient protein -protein complexes [D] . Pogorelov, Taras Vladimirovich 2006

机译：分子动力学方法在蛋白质折叠和瞬时蛋白质-蛋白质复合物能量分布研究中的应用与发展
6. A Seed Expansion Graph Clustering Method for Protein Complexes Detection in Protein Interaction Networks [O] . Jie Wang, Wenping Zheng, Yuhua Qian, 2017

机译：蛋白质相互作用网络中蛋白质复合物检测的种子扩展图聚类方法
7. Unraveling tobacco BY-2 protein complexes with BN PAGE/LC-MS/MS and clustering methods [O] . Remmerie Noor, De Vijlder Thomas, Valkenborg Dirk, 2011

机译：利用BN PAGE / LC-MS / MS和聚类方法揭示烟草BY-2蛋白复合物

Firefly Clustering Method for Mining Protein Complexes

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