Graph representation learning in biomedicine and healthcare

MM Li, K Huang, M Zitnik - Nature Biomedical Engineering, 2022 - nature.com
Networks—or graphs—are universal descriptors of systems of interacting elements. In
biomedicine and healthcare, they can represent, for example, molecular interactions …

TCM network pharmacology: a new trend towards combining computational, experimental and clinical approaches

W Xin, W Zi-Yi, JH Zheng, LI Shao - Chinese journal of natural medicines, 2021 - Elsevier
Traditional Chinese medicine (TCM) is a precious treasure of the Chinese nation and has
unique advantages in the prevention and treatment of diseases. The holistic view of TCM …

Graph neural networks and their current applications in bioinformatics

XM Zhang, L Liang, L Liu, MJ Tang - Frontiers in genetics, 2021 - frontiersin.org
Graph neural networks (GNNs), as a branch of deep learning in non-Euclidean space,
perform particularly well in various tasks that process graph structure data. With the rapid …

A review of computational drug repositioning: strategies, approaches, opportunities, challenges, and directions

TN Jarada, JG Rokne, R Alhajj - Journal of cheminformatics, 2020 - Springer
Drug repositioning is the process of identifying novel therapeutic potentials for existing drugs
and discovering therapies for untreated diseases. Drug repositioning, therefore, plays an …

Graph representation learning in bioinformatics: trends, methods and applications

HC Yi, ZH You, DS Huang… - Briefings in …, 2022 - academic.oup.com
Graph is a natural data structure for describing complex systems, which contains a set of
objects and relationships. Ubiquitous real-life biomedical problems can be modeled as …

Biological network analysis with deep learning

G Muzio, L O'Bray, K Borgwardt - Briefings in bioinformatics, 2021 - academic.oup.com
Recent advancements in experimental high-throughput technologies have expanded the
availability and quantity of molecular data in biology. Given the importance of interactions in …

Msdr: Multi-step dependency relation networks for spatial temporal forecasting

D Liu, J Wang, S Shang, P Han - Proceedings of the 28th ACM SIGKDD …, 2022 - dl.acm.org
Spatial temporal forecasting plays an important role in improving the quality and
performance of Intelligent Transportation Systems. This task is rather challenging due to the …

Network representation learning: from preprocessing, feature extraction to node embedding

J Zhou, L Liu, W Wei, J Fan - ACM Computing Surveys (CSUR), 2022 - dl.acm.org
Network representation learning (NRL) advances the conventional graph mining of social
networks, knowledge graphs, and complex biomedical and physics information networks …

Artificial intelligence-driven biomedical genomics

K Guo, M Wu, Z Soo, Y Yang, Y Zhang, Q Zhang… - Knowledge-Based …, 2023 - Elsevier
As genomic research becomes more complex and data-rich, artificial intelligence (AI) has
emerged as a crucial tool for processing and analyzing high-dimensional genomic data …

Multi-view multichannel attention graph convolutional network for miRNA–disease association prediction

X Tang, J Luo, C Shen, Z Lai - Briefings in Bioinformatics, 2021 - academic.oup.com
Motivation: In recent years, a growing number of studies have proved that microRNAs
(miRNAs) play significant roles in the development of human complex diseases. Discovering …