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CASS: A distributed network clustering algorithm based on structure similarity for large-scale network
As the size of networks increases, it is becoming important to analyze large-scale network data. A network clustering algorithm is useful for analysis of network data. Conventional network clustering algorithms in a single machine environment rather than a parallel machine environment are actively b...
Autores principales: | , , , , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Public Library of Science
2018
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6179193/ https://www.ncbi.nlm.nih.gov/pubmed/30303961 http://dx.doi.org/10.1371/journal.pone.0203670 |
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author | Kim, Jungrim Shin, Mincheol Kim, Jeongwoo Park, Chihyun Lee, Sujin Woo, Jaemin Kim, Hyerim Seo, Dongmin Yu, Seokjong Park, Sanghyun |
author_facet | Kim, Jungrim Shin, Mincheol Kim, Jeongwoo Park, Chihyun Lee, Sujin Woo, Jaemin Kim, Hyerim Seo, Dongmin Yu, Seokjong Park, Sanghyun |
author_sort | Kim, Jungrim |
collection | PubMed |
description | As the size of networks increases, it is becoming important to analyze large-scale network data. A network clustering algorithm is useful for analysis of network data. Conventional network clustering algorithms in a single machine environment rather than a parallel machine environment are actively being researched. However, these algorithms cannot analyze large-scale network data because of memory size issues. As a solution, we propose a network clustering algorithm for large-scale network data analysis using Apache Spark by changing the paradigm of the conventional clustering algorithm to improve its efficiency in the Apache Spark environment. We also apply optimization approaches such as Bloom filter and shuffle selection to reduce memory usage and execution time. By evaluating our proposed algorithm based on an average normalized cut, we confirmed that the algorithm can analyze diverse large-scale network datasets such as biological, co-authorship, internet topology and social networks. Experimental results show that the proposed algorithm can develop more accurate clusters than comparative algorithms with less memory usage. Furthermore, we confirm the proposed optimization approaches and the scalability of the proposed algorithm. In addition, we validate that clusters found from the proposed algorithm can represent biologically meaningful functions. |
format | Online Article Text |
id | pubmed-6179193 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2018 |
publisher | Public Library of Science |
record_format | MEDLINE/PubMed |
spelling | pubmed-61791932018-10-19 CASS: A distributed network clustering algorithm based on structure similarity for large-scale network Kim, Jungrim Shin, Mincheol Kim, Jeongwoo Park, Chihyun Lee, Sujin Woo, Jaemin Kim, Hyerim Seo, Dongmin Yu, Seokjong Park, Sanghyun PLoS One Research Article As the size of networks increases, it is becoming important to analyze large-scale network data. A network clustering algorithm is useful for analysis of network data. Conventional network clustering algorithms in a single machine environment rather than a parallel machine environment are actively being researched. However, these algorithms cannot analyze large-scale network data because of memory size issues. As a solution, we propose a network clustering algorithm for large-scale network data analysis using Apache Spark by changing the paradigm of the conventional clustering algorithm to improve its efficiency in the Apache Spark environment. We also apply optimization approaches such as Bloom filter and shuffle selection to reduce memory usage and execution time. By evaluating our proposed algorithm based on an average normalized cut, we confirmed that the algorithm can analyze diverse large-scale network datasets such as biological, co-authorship, internet topology and social networks. Experimental results show that the proposed algorithm can develop more accurate clusters than comparative algorithms with less memory usage. Furthermore, we confirm the proposed optimization approaches and the scalability of the proposed algorithm. In addition, we validate that clusters found from the proposed algorithm can represent biologically meaningful functions. Public Library of Science 2018-10-10 /pmc/articles/PMC6179193/ /pubmed/30303961 http://dx.doi.org/10.1371/journal.pone.0203670 Text en © 2018 Kim et al http://creativecommons.org/licenses/by/4.0/ This is an open access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/) , which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited. |
spellingShingle | Research Article Kim, Jungrim Shin, Mincheol Kim, Jeongwoo Park, Chihyun Lee, Sujin Woo, Jaemin Kim, Hyerim Seo, Dongmin Yu, Seokjong Park, Sanghyun CASS: A distributed network clustering algorithm based on structure similarity for large-scale network |
title | CASS: A distributed network clustering algorithm based on structure similarity for large-scale network |
title_full | CASS: A distributed network clustering algorithm based on structure similarity for large-scale network |
title_fullStr | CASS: A distributed network clustering algorithm based on structure similarity for large-scale network |
title_full_unstemmed | CASS: A distributed network clustering algorithm based on structure similarity for large-scale network |
title_short | CASS: A distributed network clustering algorithm based on structure similarity for large-scale network |
title_sort | cass: a distributed network clustering algorithm based on structure similarity for large-scale network |
topic | Research Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6179193/ https://www.ncbi.nlm.nih.gov/pubmed/30303961 http://dx.doi.org/10.1371/journal.pone.0203670 |
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