Regulation-aware graph learning for drug repositioning over heterogeneous biological network

BW Zhao, XR Su, Y Yang, DX Li, GD Li, PW Hu… - Information …, 2025 - Elsevier
Drug repositioning (DR) is crucial for identifying new disease indications for existing drugs
and enhancing their clinical utility. Despite the effectiveness of various artificial intelligence …

BEROLECMI: a novel prediction method to infer circRNA-miRNA interaction from the role definition of molecular attributes and biological networks

XF Wang, CQ Yu, ZH You, Y Wang, L Huang, Y Qiao… - BMC …, 2024 - Springer
Abstract Circular RNA (CircRNA)–microRNA (miRNA) interaction (CMI) is an important
model for the regulation of biological processes by non-coding RNA (ncRNA), which …

Enhancing drug repositioning through local interactive learning with bilinear attention networks

X Tang, C Zhou, C Lu, Y Meng, J Xu… - IEEE Journal of …, 2023 - ieeexplore.ieee.org
Drug repositioning has emerged as a promising strategy for identifying new therapeutic
applications for existing drugs. In this study, we present DRGBCN, a novel computational …

DeepMPF: deep learning framework for predicting drug–target interactions based on multi-modal representation with meta-path semantic analysis

ZH Ren, ZH You, Q Zou, CQ Yu, YF Ma… - Journal of Translational …, 2023 - Springer
Background Drug-target interaction (DTI) prediction has become a crucial prerequisite in
drug design and drug discovery. However, the traditional biological experiment is time …

Predicting abiotic stress-responsive miRNA in plants based on multi-source features fusion and graph neural network

L Chang, X Jin, Y Rao, X Zhang - Plant Methods, 2024 - Springer
Background More and more studies show that miRNA plays a crucial role in plants'
response to different abiotic stresses. However, traditional experimental methods are often …

CBKG-DTI: Multi-Level Knowledge Distillation and Biomedical Knowledge Graph for Drug-Target Interaction Prediction

X Zhao, Q Wang, Y Zhang, C He… - IEEE Journal of …, 2024 - ieeexplore.ieee.org
The prediction of drug-target interactions (DTIs) has emerged as a vital step in drug
discovery. Recently, biomedical knowledge graph enables the utilization of multi-omics …

Autonomously Adjusting Multi-Relational Hypergraphs Structure for Predicting circRNA-MiRNA Associations

W Yin, S Wang, Y Zhang, S Qiao… - IEEE Journal of …, 2025 - ieeexplore.ieee.org
Identifying circRNA-miRNA associations is critical for understanding gene regulatory
mechanisms, discovering new biomarkers, and developing therapeutic strategies. The …

DLM-DTI: a dual language model for the prediction of drug-target interaction with hint-based learning

J Lee, DW Jun, I Song, Y Kim - Journal of Cheminformatics, 2024 - Springer
The drug discovery process is demanding and time-consuming, and machine learning-
based research is increasingly proposed to enhance efficiency. A significant challenge in …

Predicting Drug-Protein Interactions by Self-Adaptively Adjusting the Topological Structure of the Heterogeneous Network

R Tang, C Sun, J Huang, M Li, J Wei… - IEEE Journal of …, 2023 - ieeexplore.ieee.org
Many powerful computational methods based on graph neural networks (GNNs) have been
proposed to predict drug-protein interactions (DPIs). It can effectively reduce laboratory …

Redefining the Game: MVAE-DFDPnet's Low-Dimensional Embeddings for Superior Drug-Protein Interaction Predictions

LY Xia, Y Wu, L Zhao, L Chen, S Zhang… - IEEE Journal of …, 2024 - ieeexplore.ieee.org
Precisely predicting drug-protein interactions (DPIs) is pivotal for drug discovery and
advancing precision medicine. A significant challenge in this domain is the high …