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  1. Article

    Open Access

    iProL: identifying DNA promoters from sequence information based on Longformer pre-trained model

    Promoters are essential elements of DNA sequence, usually located in the immediate region of the gene transcription start sites, and play a critical role in the regulation of gene transcription. Its importance...

    Binchao Peng, Guicong Sun, Yongxian Fan in BMC Bioinformatics (2024)

  2. Article

    Open Access

    IHCP: interpretable hepatitis C prediction system based on black-box machine learning models

    Hepatitis C is a prevalent disease that poses a high risk to the human liver. Early diagnosis of hepatitis C is crucial for treatment and prognosis. Therefore, develo** an effective medical decision system i...

    Yongxian Fan, **qian Lu, Guicong Sun in BMC Bioinformatics (2023)

  3. Article

    Open Access

    DeepASDPred: a CNN-LSTM-based deep learning method for Autism spectrum disorders risk RNA identification

    Autism spectrum disorders (ASD) are a group of neurodevelopmental disorders characterized by difficulty communicating with society and others, behavioral difficulties, and a brain that processes information di...

    Yongxian Fan, Hui **ong, Guicong Sun in BMC Bioinformatics (2023)

  4. Article

    Open Access

    StackEPI: identification of cell line-specific enhancer–promoter interactions based on stacking ensemble learning

    Understanding the regulatory role of enhancer–promoter interactions (EPIs) on specific gene expression in cells contributes to the understanding of gene regulation, cell differentiation, etc., and its identifi...

    Yongxian Fan, Binchao Peng in BMC Bioinformatics (2022)

  5. Article

    Open Access

    Using multi-layer perceptron to identify origins of replication in eukaryotes via informative features

    The origin is the starting site of DNA replication, an extremely vital part of the informational inheritance between parents and children. More importantly, accurately identifying the origin of replication has...

    Yongxian Fan, Wanru Wang in BMC Bioinformatics (2021)

  6. Article

    Open Access

    PyConvU-Net: a lightweight and multiscale network for biomedical image segmentation

    With the development of deep learning (DL), more and more methods based on deep learning are proposed and achieve state-of-the-art performance in biomedical image segmentation. However, these methods are usual...

    Changyong Li, Yongxian Fan, **aodong Cai in BMC Bioinformatics (2021)