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Mengting Niu

I am a PhD student at Quan Zou's Lab, Chengdu, where I work on deep learning, bioinformatic, and computer vision, etc. Before that, I did my master at Northeast Forestry University.

Email  /  Google Scholar

News

  • 02/2022, one paper has been accepted by Plos Computational Biology.

  • 02/2022, one paper has been accepted by Bioinformatics.

    • Research

  • Using machine learning methods to solve bioinformatics problems
    • biological sequence classification
      • software
      • Deep learning
      • classification of unbalanced data
    • CircRNA /ncRNA mining, disease association prediction,etc
      • circRNA identification
      • circRNA-disease association prediction
      • circRNA&RBP interaction sites predication

      Papers:

      1. CRBPDL: Identification of circRNA-RBP interaction sites using an ensemble neural network approach.
        2. Mengting Niu, Quan Zou, Chen Lin
        PLOS Computational Biology 2022 (code&data))
        Niu M, Zou Q, Lin C. CRBPDL: Identification of circRNA-RBP interaction sites using an ensemble neural network approach[J]. Plos Computational Biology, 2022, 18(1): e1009798-e1009798. (cite)

      2. GMNN2CD: Identification of circRNA–disease associations based on variational inference and graph Markov neural networks.
        3. Mengting Niu, Quan Zou, Chunyu Wang
        Bioinformatics 2022 (code&data)
        Mengting Niu, Quan Zou, Chunyu Wang, GMNN2CD: identification of circRNA–disease associations based on variational inference and graph Markov neural networks, Bioinformatics, 2022;, btac079, https://doi.org/10.1093/bioinformatics/btac079. (cite)

      3. Characterizing viral circRNAs and their application in identifying circRNAs in viruses
        4. Mengting Niu, Ying Ju, Chen Lin, Quan Zou
        Briefings in Bioinformatics 2021
        Niu M, Ju Y, Lin C, et al. Characterizing viral circRNAs and their application in identifying circRNAs in viruses[J]. Briefings in Bioinformatics, 2022, 23(1): bbab404. (cite)

      4. rBPDL: Predicting RNA-binding proteins using deep learning
        5. Mengting Niu, Jin Wu, Quan Zou, Zhendong Liu, Lei Xu
        IEEE Journal of Biomedical and Health Informatics(data and codes)
        Niu M, Wu J, Zou Q, et al. rBPDL: Predicting RNA-Binding Proteins Using Deep Learning[J]. IEEE journal of biomedical and health informatics, 2021, 25(9): 3668-3676. (cite)

      5. sgRNACNN: identifying sgRNA on-target activity in four crops using ensembles of convolutional neural networks.
        6. Mengting Niu,Yuan Lin, Quan Zou
        Plant molecular biology 2021 (data and code )
        Niu M, Lin Y, Zou Q. sgRNACNN: identifying sgRNA on-target activity in four crops using ensembles of convolutional neural networks[J]. Plant molecular biology, 2021, 105(4-5): 483-495. (cite)

      6. SgRNA-RF: identification of SgRNA on-target activity with imbalanced datasets
        7. Mengting Niu, Quan Zou
        IEEE/ACM Transactions on Computational Biology and Bioinformatics 2021 (web)and dataset)
        Niu, M., & Zou, Q. (2021). SgRNA-RF: identification of SgRNA on-target activity with imbalanced datasets. IEEE/ACM Transactions on Computational Biology and Bioinformatics. (cite)

      7. CirRNAPL: a web server for the identification of circRNA based on extreme learning machine
        8. Mengting Niu, Jun Zhang, Yanjuan Li, Cankun Wang, Zhaoqian Liu, Hui Ding, Quan Zou, Qin Ma
        Computational and structural biotechnology journal 2020 (web) and dataset)
        Niu M, Zhang J, Li Y, et al. CirRNAPL: a web server for the identification of circRNA based on extreme learning machine[J]. Computational and structural biotechnology journal, 2020, 18: 834-842. (cite)

      8. ELM-MHC: an improved MHC identification method with extreme learning machine algorithm
        9. Y Li,Mengting Niu, , Q Zou
        Journal of proteome research 2019 (web)and dataset)
        Li Y, Niu M, Zou Q. ELM-MHC: an improved MHC identification method with extreme learning machine algorithm[J]. Journal of proteome research, 2019, 18(3): 1392-1401. (cite)

      9. RFAmyloid: a web server for predicting amyloid proteins.
        Mengting Niu,Yanjuan Li, Chunyu Wang, Ke Han
        International journal of molecular sciences 2019 (web)and dataset)
        Niu M, Li Y, Wang C, et al. RFAmyloid: A Web Server for Predicting Amyloid Proteins[J]. International journal of molecular sciences, 2018, 19(7): 2071. (cite)

      10. Application research of Remote sensing image clustering based on K-means algorithm
        11. computer engineering and science(in chinese).2019

      11. Collaborative filtering recommendation algorithm based on k-means clustering model
        12. Computer Engineering and Applications(in chinese).2019

      12. An Intelligent Recommendation Mobile Application Privacy Risk Evaluation Method Based on Optimized SVM
        13. 2020 IEEE 4th Information Technology, Networking, Electronic and Automation

      13. An inductive logic programming algorithm based on artificial bee colony.
        14. Journal of Information Technology Research (JITR)

      Recent Projects

      The main project involved is the related research of circular RNA. Currently, I am leading the GMNN and MSRN project, which aims to develop a series of deep learning models to solve computational problems of circRNA.

    • GMNN Neural Networks

    • MSRN

    • Participate in the project

      • The Natural Science Foundation of China (No.62131004,62172076)

      Awards

    • 2019, National Scholarship for Graduate Students

    • 2017, National Scholarship for Graduate Students

      • Welcome