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International Conference on Intelligent Computing

ICIC 2020: Intelligent Computing Theories and Application pp 505–513Cite as

A Novel Computational Method for Predicting LncRNA-Disease Associations from Heterogeneous Information Network with SDNE Embedding Model

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Part of the book series: Lecture Notes in Computer Science ((LNISA,volume 12464))

Abstract

Recent studies have shown that lncRNAs play a critical role in numerous complex human diseases. Thus, identification of lncRNA and diseases associations can help us to understand disease pathogenesis at the molecular level and develop disease diagnostic biomarkers. In this paper, a novel computational method LDAMAN is proposed to predict potential lncRNA-disease interactions from heterogeneous information network with SDNE embedding model. Specifically, known associations among lncRNA, disease, microRNA, circular RNA, mRNA, protein, drug and microbe are integrated to construct a molecular association network and a network embedding model SDNE is employed to extract network behavior features of lncRNA and disease nodes. Finally, the XGBoost classifier is used for predicting potential lncRNA-disease associations. In the experiment, the proposed method obtained stable AUC of 92.58% using 5-fold cross validation. In summary, the experimental results demonstrate our method provides a systematic landscape and computational prediction tool for lncRNA-disease association prediction.

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Funding

This research was funded by the National Natural Science Foundation of China, grant number 61772333. This research was funded by the Special Project of Education Department of Shaanxi Provincial Government of china, grant number 16JK1048.

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Authors and Affiliations

  1. The School of Computer, BaoJi University of Arts and Sciences, Baoji, 721016, China

    Ping Zhang

  2. The Xinjiang Technical Institute of Physics and Chemistry, Chinese Academy of Sciences, Urumqi, 830011, China

    Bo-Wei Zhao, Leon Wong, Zhu-Hong You, Zhen-Hao Guo & Hai-Cheng Yi

  3. University of Chinese Academy of Sciences, Beijing, 100049, China

    Bo-Wei Zhao, Leon Wong, Zhu-Hong You, Zhen-Hao Guo & Hai-Cheng Yi

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  1. Ping Zhang
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  2. Bo-Wei Zhao
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  3. Leon Wong
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  4. Zhu-Hong You
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  5. Zhen-Hao Guo
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  6. Hai-Cheng Yi
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Corresponding author

Correspondence to Zhu-Hong You .

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Editors and Affiliations

  1. Institute of Machine Learning and Systems Biology, Tongji University, Shanghai, China

    De-Shuang Huang

  2. School of Electrical Engineering, University of Ulsan, Ulsan, Korea (Republic of)

    Kang-Hyun Jo

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Zhang, P., Zhao, BW., Wong, L., You, ZH., Guo, ZH., Yi, HC. (2020). A Novel Computational Method for Predicting LncRNA-Disease Associations from Heterogeneous Information Network with SDNE Embedding Model. In: Huang, DS., Jo, KH. (eds) Intelligent Computing Theories and Application. ICIC 2020. Lecture Notes in Computer Science(), vol 12464. Springer, Cham. https://doi.org/10.1007/978-3-030-60802-6_44

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  • DOI: https://doi.org/10.1007/978-3-030-60802-6_44

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  • Online ISBN: 978-3-030-60802-6

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