World's Best Scientists 2026 revealed!
Xing-Ming Zhao

Xing-Ming Zhao

D-Index & Metrics

Computer Science

D-Index
45
Citations
6864
World Ranking
7298
National Ranking
968

Overview

Xing-Ming Zhao is affiliated with Fudan University in China. Their research spans multiple domains within biochemistry, genetics, molecular biology, and medicine, with a strong focus on molecular biology and ecology.

Their main fields of study include:

  • Biochemistry, Genetics and Molecular Biology
  • Medicine

Specific subfields that Zhao frequently works in are:

  • Molecular Biology
  • Ecology
  • Electrical and Electronic Engineering
  • Genetics
  • Cognitive Neuroscience

Key topics of Zhao's research cover areas such as:

  • Genomics and Phylogenetic Studies
  • Gut microbiota and health
  • Bioinformatics and Genomic Networks
  • Bacteriophages and microbial interactions
  • Gene expression and cancer classification
  • Machine Learning in Bioinformatics
  • Functional Brain Connectivity Studies

Zhao has published extensively, with frequent appearances in several academic venues including:

  • bioRxiv (Cold Spring Harbor Laboratory)
  • SSRN Electronic Journal
  • Nucleic Acids Research
  • Zenodo (CERN European Organization for Nuclear Research)
  • Nature Communications

Notable recent papers include:

  • "Discovery of antimicrobial peptides in the global microbiome with machine learning," 2024, Cell
  • "Associations of Social Isolation and Loneliness With Later Dementia," 2022, Neurology
  • "Towards the biogeography of prokaryotic genes," 2021, Nature
  • "GMrepo v2: a curated human gut microbiome database with special focus on disease markers and cross-dataset comparison," 2021, Nucleic Acids Research
  • "A deep siamese neural network improves metagenome-assembled genomes in microbiome datasets across different environments," 2022, Nature Communications

Zhao has collaborated frequently with multiple researchers, including:

  • Peer Bork
  • Luís Pedro Coelho
  • Jingqi Chen
  • Wei-Hua Chen
  • Rongda Zhao

Best Publications

  • Inferring gene regulatory networks from gene expression data by path consistency algorithm based on conditional mutual information

    Xiujun Zhang;Xing-Ming Zhao;Kun He;Le Lu

  • Prediction of Drug Combinations by Integrating Molecular and Pharmacological Data

    Xing-Ming Zhao;Murat Iskar;Georg Zeller;Michael Kuhn

  • APIS: accurate prediction of hot spots in protein interfaces by combining protrusion index with solvent accessibility

    Jun Feng Xia;Jun Feng Xia;Xing Ming Zhao;Jiangning Song;Jiangning Song;De Shuang Huang

  • Victors: a web-based knowledge base of virulence factors in human and animal pathogens

    Samantha Sayers;Li Li;Edison Ong;Shunzhou Deng;Shunzhou Deng

  • DeepPhos: prediction of protein phosphorylation sites with deep learning

    Fenglin Luo;Minghui Wang;Yu Liu;Xing Ming Zhao

  • OGEE v2: an update of the online gene essentiality database with special focus on differentially essential genes in human cancer cell lines.

    Wei-Hua Chen;Guanting Lu;Xiao Chen;Xing-Ming Zhao

  • Protein classification with imbalanced data.

    Xing-Ming Zhao;Xin Li;Luonan Chen;Kazuyuki Aihara

  • GMrepo: a database of curated and consistently annotated human gut metagenomes.

    Sicheng Wu;Chuqing Sun;Yanze Li;Teng Wang

  • NARROMI: a noise and redundancy reduction technique improves accuracy of gene regulatory network inference

    Xiujun Zhang;Keqin Liu;Zhi-Ping Liu;Béatrice Duval

  • Conditional mutual inclusive information enables accurate quantification of associations in gene regulatory networks

    Xiujun Zhang;Juan Zhao;Jin-Kao Hao;Xing-Ming Zhao

  • GMrepo v2: a curated human gut microbiome database with special focus on disease markers and cross-dataset comparison.

    Die Dai;Jiaying Zhu;Chuqing Sun;Min Li

  • Uncovering signal transduction networks from high-throughput data by integer linear programming

    Xing-Ming Zhao;Rui-Sheng Wang;Luonan Chen;Kazuyuki Aihara

  • Identifying disease genes and module biomarkers by differential interactions

    Xiaoping Liu;Zhi-Ping Liu;Xing-Ming Zhao;Luonan Chen;Luonan Chen;Luonan Chen

  • Identifying dysregulated pathways in cancers from pathway interaction networks

    Ke-Qin Liu;Ke-Qin Liu;Zhi-Ping Liu;Jin-Kao Hao;Luonan Chen;Luonan Chen;Luonan Chen

  • Drug discovery in the age of systems biology: the rise of computational approaches for data integration

    Murat Iskar;Georg Zeller;Xing-Ming Zhao;Vera van Noort

  • Gene function prediction using labeled and unlabeled data.

    Xing-Ming Zhao;Xing-Ming Zhao;Yong Wang;Luonan Chen;Kazuyuki Aihara

  • Macrel: antimicrobial peptide screening in genomes and metagenomes

    Célio Dias Santos-Júnior;Célio Dias Santos-Júnior;Shaojun Pan;Shaojun Pan;Xing-Ming Zhao;Xing-Ming Zhao;Luis Pedro Coelho;Luis Pedro Coelho

  • PPIM: A Protein-Protein Interaction Database for Maize.

    Guanghui Zhu;Aibo Wu;Xin-Jian Xu;Pei-Pei Xiao

  • Cascleave 2.0, a new approach for predicting caspase and granzyme cleavage targets

    Mingjun Wang;Xing-Ming Zhao;Hao Tan;Tatsuya Akutsu

  • Identifying cancer-related microRNAs based on gene expression data.

    Xing-Ming Zhao;Ke-Qin Liu;Guanghui Zhu;Feng He

  • Predicting protein–protein interactions from protein sequences using meta predictor

    Jun-Feng Xia;Jun-Feng Xia;Xing-Ming Zhao;De-Shuang Huang

  • Detecting early-warning signals of type 1 diabetes and its leading biomolecular networks by dynamical network biomarkers.

    Xiaoping Liu;Rui Liu;Rui Liu;Xing-Ming Zhao;Luonan Chen;Luonan Chen

Frequent Co-Authors

Luonan Chen
Luonan Chen Chinese Academy of Sciences
Jiangning Song
Jiangning Song Monash University
Kazuyuki Aihara
Kazuyuki Aihara University of Tokyo
Peer Bork
Peer Bork European Molecular Biology Laboratory
Jianfeng Feng
Jianfeng Feng Fudan University
De-Shuang Huang
De-Shuang Huang Tongji University
Jin-Kao Hao
Jin-Kao Hao University of Angers
Hong Yan
Hong Yan City University of Hong Kong
Yiu-ming Cheung
Yiu-ming Cheung Hong Kong Baptist University
Barbara J. Sahakian
Barbara J. Sahakian University of Cambridge

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