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  1. Article

    Open Access

    CNN-DDI: a learning-based method for predicting drug–drug interactions using convolution neural networks

    Drug–drug interactions (DDIs) are the reactions between drugs. They are compartmentalized into three types: synergistic, antagonistic and no reaction. As a rapidly develo** technology, predicting DDIs-associ...

    Chengcheng Zhang, Yao Lu, Tianyi Zang in BMC Bioinformatics (2022)

  2. Article

    Open Access

    A multi-network integration approach for measuring disease similarity based on ncRNA regulation and heterogeneous information

    Measuring similarity between complex diseases has significant implications for revealing the pathogenesis of diseases and development in the domain of biomedicine. It has been consentaneous that functional ass...

    Ningyi Zhang, Tianyi Zang in BMC Bioinformatics (2022)

  3. Article

    Open Access

    DRACP: a novel method for identification of anticancer peptides

    Millions of people are suffering from cancers, but accurate early diagnosis and effective treatment are still tough for all doctors. Common ways against cancer include surgical operation, radiotherapy and chem...

    Tianyi Zhao, Yang Hu, Tianyi Zang in BMC Bioinformatics (2020)

  4. Article

    Open Access

    deSALT: fast and accurate long transcriptomic read alignment with de Bruijn graph-based index

    The alignment of long-read RNA sequencing reads is non-trivial due to high sequencing errors and complicated gene structures. We propose deSALT, a tailored two-pass alignment approach, which constructs graph-b...

    Bo Liu, Yadong Liu, Junyi Li, Hongzhe Guo, Tianyi Zang, Yadong Wang in Genome Biology (2019)

  5. Article

    Open Access

    LncDisAP: a computation model for LncRNA-disease association prediction based on multiple biological datasets

    Over the past decades, a large number of long non-coding RNAs (lncRNAs) have been identified. Growing evidence has indicated that the mutation and dysregulation of lncRNAs play a critical role in the developme...

    Yongtian Wang, Liran Juan, Jiajie Peng, Tianyi Zang, Yadong Wang in BMC Bioinformatics (2019)

  6. Article

    Open Access

    Identifying Alzheimer’s disease-related proteins by LRRGD

    Alzheimer’s disease (AD) imposes a heavy burden on society and every family. Therefore, diagnosing AD in advance and discovering new drug targets are crucial, while these could be achieved by identifying AD-re...

    Tianyi Zhao, Yang Hu, Tianyi Zang, Liang Cheng in BMC Bioinformatics (2019)

  7. Article

    Open Access

    Prioritizing candidate diseases-related metabolites based on literature and functional similarity

    As the terminal products of cellular regulatory process, functional related metabolites have a close relationship with complex diseases, and are often associated with the same or similar diseases. Therefore, i...

    Yongtian Wang, Liran Juan, Jiajie Peng, Tianyi Zang, Yadong Wang in BMC Bioinformatics (2019)

  8. Article

    Open Access

    Human mitochondrial genome compression using machine learning techniques

    In recent years, with the development of high-throughput genome sequencing technologies, a large amount of genome data has been generated, which has caused widespread concern about data storage and transmissio...

    Rongjie Wang, Tianyi Zang, Yadong Wang in Human Genomics (2019)

  9. Article

    Open Access

    Identifying diseases-related metabolites using random walk

    Metabolites disrupted by abnormal state of human body are deemed as the effect of diseases. In comparison with the cause of diseases like genes, these markers are easier to be captured for the prevention and d...

    Yang Hu, Tianyi Zhao, Ningyi Zhang, Tianyi Zang, Jun Zhang in BMC Bioinformatics (2018)