Welcome to Yubo Zhang's Page!
at Karolinska Institutet, Stockholm, Sweden 2022
About
Open your eyes & Open your mind
Hi, there! I am a PhD student at Nakai Lab, Human Genome Center, The Institute of Medical Science, University of Tokyo, Japan. My primary research objective is to leverage computational biology methods, including multi-omics analysis, machine learning, and deep learning, along with a variety of biological laboratory techniques such as cell culture, experimental animals, PCR, and Flow Cytometry, to address current challenges in the fields of immunology, molecular biology, and genomics.
—-- Enlightened by
Corporation
News
【2024.04.07】 Yubo Zhang’s personal page opened!
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Education
  • Doctoral Course
    Computational Biology and Medical Science, The University of Tokyo
    Oct 2021 - Present
  • Master Degree
    Bioinformatics and Biochemistry, The George Washington University
    Sep 2018 - Jun 2020
  • Bachelor Degree
    Pharmaceutical Biotechnology, China Medical University
    Sep 2014 - Jun 2018
Research
Train immunity and innate immune memory
Historically, it has been understood that the immune response that targets a specific pathogen was governed by the "adaptive immune system", while innate immune cells, including macrophages, were merely considered as the initial natural barrier of the immune system. However, recent studies have unveiled that, akin to adaptive immune cells such as T cells and B cells, innate immune cells are also capable of developing short-term or long-term immune "memory". Several clinical trials have illustrated that this non-specific memory can also enhance the immune response against the second infection of the pathogen, even other unrelated pathogen, including COVID-19. In Netea et al. 2016 reviewed this phenomenon as the concept of "trained immunity". Accumulating evidence suggests that epigenetic reprogramming is a core driving element of trained immunity. Deciphering the mechanisms behind trained immunity and how to successfully harness it for vaccine development will be pivotal questions in this research field. This project is in collaboration with Senior Researcher Yutaro Kumagai at AIST and Professor Jun Kunisawa and his student Kei Ishida at Osaka University.
Research
Epigenetic regulation on chromatin during macrophage hysteresis (memory) generation.
Feature Paper
Publications
Yubo Zhang, Wenbo Yang, Yutaro Kumagai, Martin Loza, Weihang Zhang, Sung-Joon Park & Kenta Nakai (2023) Multi-omics computational analysis unveils the involvement of AP-1 and CTCF in hysteresis of chromatin states during macrophage polarization. Front Immunol.
Yitao Yang, Yang Cui, Sung-Joon Park, Xin Zeng, Yubo Zhang, Martin de Jesus Loza Lopez & Kenta Nakai (2023) STAIG: Spatial Transcriptomics Analysis via Image-Aided Graph Contrastive Learning for Domain Exploration and Alignment-Free Integration. BioRxiv.
Charles P. Hinzman, Meth Jayatilake, Sunil Bansal, Brian L. Fish, Yaoxiang Li, Yubo Zhang, Shivani Bansal, Michael Girgis, Anton Iliuk, Xiao Xu, Jose A. Fernandez, John H. Griffin, Elizabeth A. Ballew, Keith Unger, Marjan Boerma, Meetha Medhora & Amrita K. Cheema (2022) An optimized method for the isolation of urinary extracellular vesicles for molecular phenotyping: detection of biomarkers for radiation exposure. J Transl Med.
Yaoxiang Li, Jatinder Singh, Rency Varghese, Yubo Zhang, Oluseyi O. Fatanmi, Amrita K. Cheema & Vijay K. Singh (2021) Transcriptome of rhesus macaque (Macaca mulatta) exposed to total-body irradiation. Sci Rep.
Contact
Laboratory of Functional Analysis in silico
Human Genome Center
The Institute of Medical Science
The University of Tokyo

8F General Research Bldg.
4-6-1 Shirokanedai Minato-ku Tokyo 108-8639, Japan

Yubo Zhang
zhang-yubo538ATg.ecc.u-tokyo.ac.jp
Copyright © 2024 Yubo Zhang. All rights reserved.