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SimNet: Similarity-based network embeddings with mean commute time
In this paper, we propose a new approach for learning node embeddings for weighted undirected networks. We perform a random walk on the network to extract the latent structural information and perform node embedding learning under a similarity-based framework. Unlike previous works, we apply a diffe...
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Formato: | Online Artículo Texto |
Lenguaje: | English |
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Public Library of Science
2019
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Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6695167/ https://www.ncbi.nlm.nih.gov/pubmed/31415635 http://dx.doi.org/10.1371/journal.pone.0221172 |
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author | Khajehnejad, Moein |
author_facet | Khajehnejad, Moein |
author_sort | Khajehnejad, Moein |
collection | PubMed |
description | In this paper, we propose a new approach for learning node embeddings for weighted undirected networks. We perform a random walk on the network to extract the latent structural information and perform node embedding learning under a similarity-based framework. Unlike previous works, we apply a different criterion to capture the proximity information between nodes in a network, and use it for improved modeling of similarities between nodes. We show that the mean commute time (MCT) between two nodes, defined as the average time a random walker takes to reach a target node and return to the source, plays a crucial role in quantifying the actual degree of proximity between two nodes of the network. We then introduce a novel definition of a similarity matrix that is based on the pair-wise mean commute time captured, which enables us to adequately represent the connection of similar nodes. We utilize pseudoinverse of the Laplacian matrix of the graph for calculating such a proximity measure, capturing rich structural information out of the graph for learning more adequate node representations of a network. The results of different experiments on three real-world networks demonstrate that our proposed method outperforms existing related efforts in classification, clustering, visualization as well as link prediction tasks. |
format | Online Article Text |
id | pubmed-6695167 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2019 |
publisher | Public Library of Science |
record_format | MEDLINE/PubMed |
spelling | pubmed-66951672019-08-16 SimNet: Similarity-based network embeddings with mean commute time Khajehnejad, Moein PLoS One Research Article In this paper, we propose a new approach for learning node embeddings for weighted undirected networks. We perform a random walk on the network to extract the latent structural information and perform node embedding learning under a similarity-based framework. Unlike previous works, we apply a different criterion to capture the proximity information between nodes in a network, and use it for improved modeling of similarities between nodes. We show that the mean commute time (MCT) between two nodes, defined as the average time a random walker takes to reach a target node and return to the source, plays a crucial role in quantifying the actual degree of proximity between two nodes of the network. We then introduce a novel definition of a similarity matrix that is based on the pair-wise mean commute time captured, which enables us to adequately represent the connection of similar nodes. We utilize pseudoinverse of the Laplacian matrix of the graph for calculating such a proximity measure, capturing rich structural information out of the graph for learning more adequate node representations of a network. The results of different experiments on three real-world networks demonstrate that our proposed method outperforms existing related efforts in classification, clustering, visualization as well as link prediction tasks. Public Library of Science 2019-08-15 /pmc/articles/PMC6695167/ /pubmed/31415635 http://dx.doi.org/10.1371/journal.pone.0221172 Text en © 2019 Moein Khajehnejad 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 Khajehnejad, Moein SimNet: Similarity-based network embeddings with mean commute time |
title | SimNet: Similarity-based network embeddings with mean commute time |
title_full | SimNet: Similarity-based network embeddings with mean commute time |
title_fullStr | SimNet: Similarity-based network embeddings with mean commute time |
title_full_unstemmed | SimNet: Similarity-based network embeddings with mean commute time |
title_short | SimNet: Similarity-based network embeddings with mean commute time |
title_sort | simnet: similarity-based network embeddings with mean commute time |
topic | Research Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6695167/ https://www.ncbi.nlm.nih.gov/pubmed/31415635 http://dx.doi.org/10.1371/journal.pone.0221172 |
work_keys_str_mv | AT khajehnejadmoein simnetsimilaritybasednetworkembeddingswithmeancommutetime |