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Welcome to Yuanxu Gao's Homepage

Yuanxu Gao obtained his B.Sc. degree in Medicine from Peking University and a Ph.D. in Bioinformatics from the same institution. His doctoral researches focus on bioinformatics analysis about non-coding RNAs and diseases. He currently serves as a postdoctoral fellow at Macao University of Science and Technology, awarded as a member of Macao Young Scholars Program. His research focus lies in modeling and comprehending the intricate mechanisms underlying complex diseases, leveraging multi-omics technologies and artificial intelligence.

Software

UniBind

UniBind An artificial intelligence framework for prediction of SARS-CoV-2 infectivity and variant evolution.

MRDN

MRDN A novel algorithm to quantify disease relations based on a large accumulated microRNA–disease association dataset and then built a disease network covering 15 disease classes and 304 diseases.

HMDD

HMDD (the Human microRNA Disease Database) is a database that curated experiment-supported evidence for human microRNA (miRNA) and disease associations.

RPRH

RPRH (Role of Plant microRNA in Human) is a database for predicted plant microRNA Functions in human. MicroRNAs are a class of small non-coding RNA molecules involved in gene expression regulation. Since the finding of cross-kingdom regulation of plant microRNA in 2012 by Zhang et al., increasing evidences suggest that microRNAs could affect gene expression in an inter-species manner. Here we developed the tool for predicting this kind of interactions between plant and human.

Publications

Wang, G., Wang, K., … Liu, X. (2024). A generalized AI system for human embryo selection covering the entire IVF cycle via multi-modal contrastive learning. Patterns, 0(0). https://doi.org/10.1016/j.patter.2024.100985

Wang, J., Gao, Y., … Zhou, Y. (2024). Accurate estimation of biological age and its application in disease prediction using a multimodal image Transformer system. Proceedings of the National Academy of Sciences, 121(3), e2308812120. https://doi.org/10.1073/pnas.2308812120

Shen, Y., Gao, Y., … Cui, Q. (2023). MicroRNA–disease Network Analysis Repurposes Methotrexate for the Treatment of Abdominal Aortic Aneurysm in Mice. Genomics, Proteomics & Bioinformatics, 21(5), 1030–1042. https://doi.org/10.1016/j.gpb.2022.08.002

Wang, G., Liu, X., … Zhang, K. (2023). Deep-learning-enabled protein–protein interaction analysis for prediction of SARS-CoV-2 infectivity and variant evolution. Nature Medicine, 29(8), 2007–2018. https://doi.org/10.1038/s41591-023-02483-5

J, Z., Y, G., … H, K. (2023). Loss of the Novel Myelin Protein CMTM5 in Multiple Sclerosis Lesions and Its Involvement in Oligodendroglial Stress Responses. Cells, 12(16). https://doi.org/10.3390/cells12162085

Li, X., Wang, J., … Zhang, K. (2022). Lipid metabolism dysfunction induced by age-dependent DNA methylation accelerates aging. Signal Transduction and Targeted Therapy, 7(1), 162. https://doi.org/10.1038/s41392-022-00964-6

Gao, Y., Zhan, J., & Yu, A. C. H. (2022). Understanding by design: Implementing deep learning from protein structure prediction to protein design. MedComm – Future Medicine, 1(2), e22. https://doi.org/10.1002/mef2.22

Gao, Y., Cui, C., … Cui, Q. (2020). RPRH: A web-based tool for the inference of potential roles of plant microRNAs in human body [Preprint]. Bioinformatics. https://doi.org/10.1101/2020.06.11.145367

Gao, Y., Yang, W., … Cui, Q. (2020). Profiling and bioinformatic analysis reveal differential microRNA expression in the left and right kidneys in normal mice. FEBS Letters, 594(4), 636–645. https://doi.org/10.1002/1873-3468.13644

Gao, Y., Jia, K., … Cui, Q. (2019). A Computational Model to Predict the Causal miRNAs for Diseases. Frontiers in Genetics, 10. https://doi.org/10.3389/fgene.2019.00935

Huang, Z., Shi, J., … Cui, Q. (2019). HMDD v3.0: A database for experimentally supported human microRNA-disease associations. Nucleic Acids Research, 47(D1), D1013–D1017. https://doi.org/10.1093/nar/gky1010

Jia, K., Gao, Y., … Cui, Q. (2020). Annotation and curation of the causality information in LncRNADisease. Database: The Journal of Biological Databases and Curation, 2020. https://doi.org/10.1093/database/baz150