Yu Zhu is now a MSc Drug Design student at University College London, United Kingdom and he was an undergraduate student majoring in Bioinformatics at Soochow University, China during the period of 2018 and 2022.
Under the guidance of Assoc. Prof. Guang Hu and Assoc. Prof. Zhongjie Liang, he is now focusing on how to integrate bioinformatics and biophysics methods to have an insight into protein dynamics, along with protein sequence, structure and function research and finally figure out how to use structural information for the construction and analysis of protein-protein interaction networks, paving the way for drug discovery. Also, supervised by Prof. Bairong Shen at Institutes for Systems Genetics, West China Hospital, he established a risk factor knowledgebase for neurodegenerative diseases (NDDRF) together with other group members.
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BSc Bioinformatics, 2018 - 2022
Soochow University, China
MSc Drug Design, 2022 - Present
University College London, United Kingdom
Commonly used programming language
Commonly used programming language
Commonly used operating system
Establishment of biological database and web page
Multi-scale bioinformatics analysis
Algorithms related to biological data processing, network topology, machine learning …
Supervised by: Assoc. Prof. Guang Hu and Assoc. Prof. Zhongjie Liang
Responsibilities include:
Supervised by: Assoc. Prof. Guang Hu and Assoc. Prof. Zhongjie Liang
Responsibilities include:
Supervised by: Prof. Bairong Shen
Responsibilities include:
Supervised by: Prof. Bairong Shen
Responsibilities include:
Allosteric drug design targeting DNMT1 Protein-Protein Interactions (PPIs) combining both biophysics and bioinformatics methods.
NDDRF provides the structured information and knowledge resource on risk factors of NDDs. It could benefit the future systematic and personalized investigation of pan-NDDs genesis and progression. Meanwhile it may be used for the future explainable artificial intelligence modeling for smart diagnosis and prevention of NDDs.
Highlights in the publication include 1)Dynamics and allosteric potentials of the RFTS domain are proposed. 2)Hinge sites located at the RFTS-CD interface are key regulators for inter-domain interactions. 3)Network analysis reveals local allosteric networks and inter-domain communication pathways in DNMT1. 4)A potential allosteric site at the TRD interface for DNMT1 is identified.
Computational tools now provide reliable assessments of hot spots and pockets found in PPIs, proving reasonable starting points for epigenetic drug design. In this chapter, a hybrid approach, comprising protein structure network, elastic network model, perturbation response scanning and sequence evolution analysis, was proposed for the systematic study of intrinsic dynamics, allostery regulation principle, allosteric sites and pockets. By applied this integrating approach to DNMT1 and DNMT3A, the roles of protein-protein and domain-domain interactions in allosteric drug design were highlighted.