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Link prediction based on extended local path gain in protein-protein interaction network
Sun, Huiyan1; Liang, Yanchun1,2; Wang, Yan1; Chen, Liang3; Du, Wei1; Jiang, Yuexu4; Shi, Xiaohu1
2019-02-01
Source PublicationTehnicki Vjesnik
ISSN1330-3651
Volume26Issue:1Pages:177-182
Abstract

Protein-protein interaction (PPI) plays key role in each cellular process of any living cell, however, almost all organisms’ PPIs are still incomplete. In this study, we firstly proposed a computational method Extended Local Path (ELP), which estimated links’ existence likelihood by integrating all their neighbours’ local paths in the network. In addition, on this basis, we extended it to Extended Local Path Gain (ELPG), which estimated gain effect when adding or deleting one potential link to the network. Applying both ELPG and ELP methods and other four recognized outstanding methods on four public PPI data of Yeast, E. coli, Fruit fly and Mouse, we demonstrated that ELPG and ELP obtained better performance under two standard measures: area under curve (AUC) and Precision. Besides, ELP and ELPG were identified as the best features for classifying existing and unknown links by using support vector machine-recursive feature elimination (SVM-RFE) for feature selection.

KeywordExtended Local Path (Elp) Extended Local Path Gain (Elpg) Link Prediction Protein-protein Interaction (Ppi)
DOI10.17559/TV-20180829122435
URLView the original
Indexed BySCIE
Language英語English
WOS Research AreaEngineering
WOS SubjectEngineering, Multidisciplinary
WOS IDWOS:000458827900026
Scopus ID2-s2.0-85063433356
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Citation statistics
Document TypeJournal article
CollectionUniversity of Macau
Corresponding AuthorWang, Yan; Shi, Xiaohu
Affiliation1.Key Laboratory of Symbol Computation and Knowledge Engineering of Ministry of Education, College of Computer Science and Technology, Jilin University, Changchun, #2699 Qianjin St, 130012, China
2.Zhuhai Laboratory of Key Laboratory of Symbol Computation, Knowledge Engineering of Ministry of Education, Department of Computer Science and Technology, Zhuhai College of Jilin University, Zhuhai, 519041, China
3.University of Macau, Taipa, Macau S.A.R., 999078, China
4.University of Missouri, Columbia, 65211, United States
Recommended Citation
GB/T 7714
Sun, Huiyan,Liang, Yanchun,Wang, Yan,et al. Link prediction based on extended local path gain in protein-protein interaction network[J]. Tehnicki Vjesnik, 2019, 26(1), 177-182.
APA Sun, Huiyan., Liang, Yanchun., Wang, Yan., Chen, Liang., Du, Wei., Jiang, Yuexu., & Shi, Xiaohu (2019). Link prediction based on extended local path gain in protein-protein interaction network. Tehnicki Vjesnik, 26(1), 177-182.
MLA Sun, Huiyan,et al."Link prediction based on extended local path gain in protein-protein interaction network".Tehnicki Vjesnik 26.1(2019):177-182.
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