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Deep Convolution Recurrent Neural Network for Predicting RNA-Protein Binding Preference in mRNA UTR Region

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Intelligent Computing Theories and Application (ICIC 2021)

Part of the book series: Lecture Notes in Computer Science ((LNAI,volume 12838))

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Abstract

mRNA translated region contains the genetic information needed to encode the protein, and the function of mRNA untranslated region is to regulate the process of protein translation. The binding of translation factors to specific sequences in the untranslated region can regulate the translation process. Predicting the binding between translation factor and mRNA sequences can help understand the mechanism of mRNA translation regulation. In this paper, We use CNN to extract local features, and LSTM to extract correlation features between different potential binding sites. By adjusting model structure, we tested the impact of CNN and LSTM on model performance. The results show that our model is better than the existing model.

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Acknowledgements

This work has been supported by the grant of National Natural Science Foundation of China (No. 62002189), supported by the grant of Natural Science Foundation of Shandong Province, China (No. ZR2020QF038).

Author information

Authors and Affiliations

  1. School of Computer and Software, Nanyang Institute of Technology, Changjiang Road 80, Nanyang, 473004, Henan, China

    Zhen Shen & YanLing Shao

  2. School of Computer Science and Technology, Qilu University of Technology (Shandong Academy of Sciences), Daxue Road 3501, Jinan, 250353, Shandong, China

    Lin Yuan

Authors
  1. Zhen Shen
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  2. YanLing Shao
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  3. Lin Yuan
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Corresponding author

Correspondence to Zhen Shen .

Editor information

Editors and Affiliations

  1. Tongji University, Shanghai, China

    De-Shuang Huang

  2. University of Ulsan, Ulsan, Korea (Republic of)

    Kang-Hyun Jo

  3. Shenzhen University, Shenzhen, China

    Jianqiang Li

  4. Far Eastern Branch of the Russian Academy of Sciences, Vladivostok, Russia

    Valeriya Gribova

  5. University of Wollongong, North Wollongong, NSW, Australia

    Prashan Premaratne

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Shen, Z., Shao, Y., Yuan, L. (2021). Deep Convolution Recurrent Neural Network for Predicting RNA-Protein Binding Preference in mRNA UTR Region. In: Huang, DS., Jo, KH., Li, J., Gribova, V., Premaratne, P. (eds) Intelligent Computing Theories and Application. ICIC 2021. Lecture Notes in Computer Science(), vol 12838. Springer, Cham. https://doi.org/10.1007/978-3-030-84532-2_32

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  • DOI: https://doi.org/10.1007/978-3-030-84532-2_32

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  • Publisher Name: Springer, Cham

  • Print ISBN: 978-3-030-84531-5

  • Online ISBN: 978-3-030-84532-2

  • eBook Packages: Computer ScienceComputer Science (R0)

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