Identification of Protein Complexes in PPI Networks by a Fuzzy Method
نویسندگان
چکیده
In this paper, we introduce a novel fuzzy method which is combined fuzzy relation, interaction probability values and hub structure to detect sub-communities in complex networks. We apply our method on yeast proteinprotein interaction network to identify the protein complexes. Compared with traditional method, more protein complexes have been identified by this new fuzzy method. Meanwhile, we evaluate our method on two real social networks. The experimental results show that our method works well and give a reasonable understanding of these communities.
منابع مشابه
A Combination Method of Centrality Measures and Biological Properties to Improve Detection of Protein Complexes in Weighted PPI Networks
Introduction: In protein-protein interaction networks (PPINs), a complex is a group of proteins that allows a biological process to take place. The correct identification of complexes can help better understanding of the function of cells used for therapeutic purposes, such as drug discoveries. One of the common methods for identifying complexes in the PPINs is clustering, but this study aimed ...
متن کاملA Combination Method of Centrality Measures and Biological Properties to Improve Detection of Protein Complexes in Weighted PPI Networks
Introduction: In protein-protein interaction networks (PPINs), a complex is a group of proteins that allows a biological process to take place. The correct identification of complexes can help better understanding of the function of cells used for therapeutic purposes, such as drug discoveries. One of the common methods for identifying complexes in the PPINs is clustering, but this study aimed ...
متن کاملProtein Complex Identification by Integrating Protein-Protein Interaction Evidence from Multiple Sources
BACKGROUND Understanding protein complexes is important for understanding the science of cellular organization and function. Many computational methods have been developed to identify protein complexes from experimentally obtained protein-protein interaction (PPI) networks. However, interaction information obtained experimentally can be unreliable and incomplete. Reconstructing these PPI networ...
متن کاملDetecting Overlapping Protein Complexes by Rough-Fuzzy Clustering in Protein-Protein Interaction Networks
In this paper, we present a novel rough-fuzzy clustering (RFC) method to detect overlapping protein complexes in protein-protein interaction (PPI) networks. RFC focuses on fuzzy relation model rather than graph model by integrating fuzzy sets and rough sets, employs the upper and lower approximations of rough sets to deal with overlapping complexes, and calculates the number of complexes automa...
متن کاملA degree-distribution based hierarchical agglomerative clustering algorithm for protein complexes identification
Since cellular functionality is typically envisioned as having a hierarchical structure, we propose a framework to identify modules (or clusters) within protein-protein interaction (PPI) networks in this paper. Based on the within-module and between-module edges of subgraphs and degree distribution, we present a formal module definition in PPI networks. Using the new module definition, an effec...
متن کاملذخیره در منابع من
با ذخیره ی این منبع در منابع من، دسترسی به آن را برای استفاده های بعدی آسان تر کنید
برای دانلود متن کامل این مقاله و بیش از 32 میلیون مقاله دیگر ابتدا ثبت نام کنید
ثبت ناماگر عضو سایت هستید لطفا وارد حساب کاربری خود شوید
ورودعنوان ژورنال:
- JSW
دوره 8 شماره
صفحات -
تاریخ انتشار 2013