Juexiao Zhou
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Juexiao Zhou

Juexiao

Hi!

I’m Juexiao Zhou, Joshua Chou, 周觉晓

I am a PhD student @King Abdullah University of Science and Technology (KAUST) working with Prof. Xin Gao.

My research interests are:

  • Intelligent Healthcare: develop machine learning (ML) / deep learning (DL) techniques for healthcare, including disease detection, risk prediction, etc.
  • Bioinformatics: develop new methods for bioinformatics tasks, including gene regulation understanding, system biology, etc.
  • Privacy and Security
  • Artificial General Intelligence (AGI)
  • Large Language Model (LLM)

**Contact: ** juexiao.zhou@kaust.edu.sa

Email: juexiao.zhou@kaust.edu.sa, juexiao.zhou@gmail.com

Wechat: JoshuaChou666

Office: Building 3, Level 4, Sea Side, 4216-WS23, KAUST

Affiliation:

Structural and Functional Bioinformatics (SFB) Group

Computational Bioscience Research Center (CBRC)

King Abdullah University of Science and Technology (KAUST)

CV (last update: May 2023) | Github | Linkedln | ORCID | Google Scholar


Education


Research and Publications

Selected Papers (# equal contribution, * corresponding author)

  1. Annotating TSSs in Multiple Cell Types Based on DNA Sequences and RNA-seq Data via DeeReCT-TSS.
    Juexiao Zhou#, Bin Zhang#, Haoyang Li, Longxi Zhou, Zhongxiao Li, Yongkang Long, Wenkai Han, Mengran Wang, Huanhuan Cui, Wei Chen, Xin Gao*.
    Genomics, Proteomics & Bioinformatics (IF: 6.615)
    DOI: 10.1016/j.gpb.2022.11.010
    Access: online, pdf

  2. Audit to Forget: A Unified Method to Revoke Patients’ Private Data in Intelligent Healthcare.
    Juexiao Zhou#, Haoyang Li#, Xingyu Liao, Bin Zhang, Wenjia He, Zhongxiao Li, Longxi Zhou, Xin Gao*
    under review.
    Access: arXiv

  3. Personalized and privacy-preserving federated heterogeneous medical image analysis with PPPML-HMI.
    Juexiao Zhou#, Longxi Zhou#, Di Wang, Xiaopeng Xu, Haoyang Li, Yuetan Chu, Wenkai Han, Xin Gao*
    under review.
    Access: medRxiv

  4. PPML-Omics: a Privacy-Preserving federated Machine Learning system protects patients’ privacy from omic data.
    Juexiao Zhou#, Siyuan Chen#, Yulian Wu#, Haoyang Li, Bin Zhang, Longxi Zhou, Yan Hu, Zihang Xiang, Zhongxiao Li, Ningning Chen, Wenkai Han, Di Wang and Xin Gao*.
    under review.
    Access: bioRxiv

  5. SkinGPT: A Dermatology Diagnostic System with Vision Large Language Model.
    Juexiao Zhou , Xin Gao*
    under review.
    Access: arXiv

  6. A comprehensive benchmarking with practical guidelines for cellular deconvolution of spatial transcriptomics.
    Haoyang Li#, Juexiao Zhou#, Zhongxiao Li, Siyuan Chen, Xingyu Liao, Bin Zhang, Ruochi Zhang, Yu Wang, Shiwei Sun, Xin Gao*
    Nature Communications (IF: 14.919)
    DOI: 10.1038/s41467-023-37168-7
    Access: online, pdf

  7. An Interpretable Deep Learning Workflow for Discovering Sub-Visual Abnormalities in CT Scans of COVID-19 Inpatients and Survivors.
    Longxi Zhou#, Xianglin Meng#, Yuxin Huang#, Kai Kang#, Juexiao Zhou, Yuetan Chu, Haoyang Li, Dexuan Xie, Jiannan Zhang, Weizhen Yang, Na Bai, Yi Zhao, Mingyan Zhao, Guohua Wang, Lawrence Carin, Xigang Xiao, Kaijiang Yu, Zhaowen Qiu, Xin Gao*.
    Nature machine intelligence (IF: 25.9)
    DOI: 10.1038/s42256-022-00483-7
    Access: online, pdf

  8. Accurate transcriptome-wide identification and quantification of alternative polyadenylation from RNA-seq data with APAIQ.
    Yongkang Long#, Bin Zhang#, Shuye Tian, Jiajia Chan, Juexiao Zhou, Zhongxiao Li, Yisheng Li, Zheng An, Xingyu Liao, Yu Wang, Shiwei Sun, Ying Xu, Yvonne Tay, Wei Chen*, Xin Gao*
    Genome Research (IF: 9.438)
    DOI: 10.1101/gr.277177.122
    Access: online, pdf

  9. Predicting the antigenic evolution of SARS-COV-2 with deep learning.
    Wenkai Han#, NingNing Chen#, Xinzhou Xu#, Adil Salhi, Juexiao Zhou, Zhongxiao Li, Huawen Zhong, Elva Gao, Ruochi Zhang, Yu Wang, Shiwei Sun*, Peter Cheung*, Xin Gao*
    Nature Communications (IF: 14.919)
    In press.

For complete publication list @here


Working Experience


Teaching Experience

  • CS220, Data Analytics, Fall 2022/2023, KAUST

    • Cooperated with Prof. Xin Gao
    • Position: Teaching Assistant

  • BioE 201/230 Foundations of Bioengineering, Fall 2022/2023, KAUST

    • Cooperated with Prof. Xin Gao
    • Position: Teaching Labs, Building 9 Room 4225
    • Contents:
      • Lab 1. Genome data analysis, 2022.08.30, colab
        • Python basics
        • D/RNA sequence analysis
        • Biopython
        • BLAST
        • Reference genome
      • Lab 2. Protein sequence analysis, 2022.09.06, colab
        • Protein sequence analysis
        • MSA
        • PDB
        • PyMOL
        • Secondary structure prediction
      • Lab 3. Protein structure and function, 2022.09.13, colab
        • Ab initio with PyRosetta
        • AlphaFold2
        • NucleicNet
        • Docking with Smina
        • Pfam annotation with deep learning

  • CS398 Graduate Seminar, Spring 2022, KAUST

    • Cooperated with Prof. Dominik Michels
    • Position: Teaching Assistant

Honours

King Abdullah University of Science and Technology

KAUST, 2021-Present

PhD, Computer Science

GPA: 4.00 / 4.00

  • KAUST AII’s NeurIPS travel grant, 2022
  • CEMSE Dean’s List Award, 2022
  • Excellent Research Award, CEMSE, 2021

King Abdullah University of Science and Technology

KAUST, 2020-2021

Master of Science, Computer Science

GPA: 3.95 / 4.00

  • Student ambassador, CEMSE, 2021
  • Yearly best student award, CEMSE, 2021
  • Full scholarship for MS/PhD study, 2020

Southern University of Science and Technology

SUSTech, 2016-2020

Bachelor of Science, Bioinformatics, Biology

GPA: 3.92 / 4.00 (Top 0.1%), Core GPA: 3.94/4.00

  • Outstanding graduate of SUSTech, 2020.
  • Cum Laude Graduate of the Department of Biology (Top 1/10), 2020.
  • The Guinness world record for “the most vows received by a single civilized act activity”, 2019
  • Candidate for 2019 National Scholarship, 2019
  • Summer social practice excellent experience Award, 2018
  • Excellent Student, The First Prize Scholarship, 2018
  • Outstanding volunteer for the 12th CBIS Biennial Meeting, Shenzhen, China, 2018
  • Candidate for 2018 National Scholarship, 2018
  • Outstanding Volunteer of the 3rd Shenzhen International Life Science & Health Industry Summit (2016) Excellent Student, The First Prize Scholarship, 2017
  • Dean scholarship, The First Prize Scholarship, 2017
  • Excellent Student Cadre, 2017
  • Outstanding Volunteer of 2017 Shenzhen International Precision Medicine Summit, 2017
  • Alma mater practice excellent team, 2017
  • National Literary Creation Award, 2016
  • Excellent Student, The Second Prize Scholarship, 2016

Memberships

  • Chinese Association for Artificial Intelligence (CAAI) Member
  • The international Asia-Pacific Bioinformatics Network (APBioNET) Member

Invited Talks

  • [2023/03/02] Audit to Forget: A Unified Method to Revoke Patients’ Private Data in Intelligent Healthcare.

  • [2023/02/02] Audit to Forget: A Unified Method to Revoke Patients’ Private Data in Intelligent Healthcare.

  • [2022/11/10] Privacy in Bioinformatics and Intelligent Healthcare.

    • Poster. Smart-Health Student Research Symposium, KAUST, Saudi Arabia

  • [2022/03/29] PPML-Omics: a Privacy-Preserving federated Machine Learning system protects patients’ privacy from omic data

    • Oral. CBRC Dual Seminar, King Abdullah University of Science and Technology, Saudi Arabia

  • [2022/03/09] PPML-Omics: a Privacy-Preserving federated Machine Learning system protects patients’ privacy from omic data

    • Oral. BDAI重点实验室研究生沙龙第19期, 中国人民大学高瓴人工智能学院，中国北京

Academic Services

Reviewer

Journal/Conference # Paper Reviewed
Genome Biology 1
Genome Research 2
Heliyon 1
IJCAI-ECAI 2022 1
ICONIP2020 1
ICMLA2021 1
Journal of Bioinformatics and Computational Biology 1
MICCAI2020 1
Multimedia Systems 1
SIGKDD2022 2

Conference Administrator

  • The 21st International Conference on Bioinformatics (InCoB2022), Administrator, certificate