Review on predicting pairwise relationships between human microbes, drugs and diseases: from biological data to computational models

L Wang, Y Tan, X Yang, L Kuang… - Briefings in …, 2022 - academic.oup.com
In recent years, with the rapid development of techniques in bioinformatics and life science,
a considerable quantity of biomedical data has been accumulated, based on which …

Identifying disease-related microbes based on multi-scale variational graph autoencoder embedding Wasserstein distance

H Zhu, H Hao, L Yu - BMC biology, 2023 - Springer
Background Enormous clinical and biomedical researches have demonstrated that
microbes are crucial to human health. Identifying associations between microbes and …

The gut microbiota links disease to human genome evolution

Y Quan, KX Zhang, HY Zhang - Trends in Genetics, 2023 - cell.com
A large number of studies have established a causal relationship between the gut
microbiota and human disease. In addition, the composition of the microbiota is substantially …

[HTML][HTML] MNNMDA: predicting human microbe-disease association via a method to minimize matrix nuclear norm

H Liu, P Bing, M Zhang, G Tian, J Ma, H Li… - Computational and …, 2023 - Elsevier
Identifying the potential associations between microbes and diseases is the first step for
revealing the pathological mechanisms of microbe-associated diseases. However …

Predicting potential microbe–disease associations based on multi-source features and deep learning

L Wang, Y Wang, C Xuan, B Zhang… - Briefings in …, 2023 - academic.oup.com
Studies have confirmed that the occurrence of many complex diseases in the human body is
closely related to the microbial community, and microbes can affect tumorigenesis and …

MGATMDA: Predicting microbe-disease associations via multi-component graph attention network

D Liu, J Liu, Y Luo, Q He, L Deng - IEEE/ACM Transactions on …, 2021 - ieeexplore.ieee.org
Microbes are parasitic in various human body organs and play significant roles in a wide
range of diseases. Identifying microbe-disease associations is conducive to the identification …

Metapath aggregated graph neural network and tripartite heterogeneous networks for microbe-disease prediction

Y Chen, X Lei - Frontiers in Microbiology, 2022 - frontiersin.org
More and more studies have shown that understanding microbe-disease associations
cannot only reveal the pathogenesis of diseases, but also promote the diagnosis and …

Identification of microbe–disease signed associations via multi-scale variational graph autoencoder based on signed message propagation

H Zhu, H Hao, L Yu - BMC biology, 2024 - Springer
Background Plenty of clinical and biomedical research has unequivocally highlighted the
tremendous significance of the human microbiome in relation to human health. Identifying …

AMDB: a database of animal gut microbial communities with manually curated metadata

J Yang, J Park, Y Jung, J Chun - Nucleic Acids Research, 2022 - academic.oup.com
Variations in gut microbiota can be explained by animal host characteristics, including host
phylogeny and diet. However, there are currently no databases that allow for easy …

GMMAD: a comprehensive database of human gut microbial metabolite associations with diseases

CY Wang, X Kuang, QQ Wang, GQ Zhang, ZS Cheng… - BMC genomics, 2023 - Springer
Background The natural products, metabolites, of gut microbes are crucial effect factors on
diseases. Comprehensive identification and annotation of relationships among disease …