Ziding Zhang

发表

Ziding Zhang, M. Grigorov, 2005, Proteins.

The prediction of protein-protein interaction networks in rice blast fungus

Ziding Zhang, Fei He, Yan Zhang, 2008, BMC Genomics.

Predicting Residue-Residue Contacts and Helix-Helix Interactions in Transmembrane Proteins Using an Integrative Feature-Based Random Forest Approach

Ziding Zhang, Xiaofei Wang, Zhen Chen, 2011, PloS one.

AtKC1 and CIPK23 Synergistically Modulate AKT1-Mediated Low-Potassium Stress Responses in Arabidopsis1[OPEN]

Ziding Zhang, Wei-Hua Wu, Xue-Ping Wang, 2016, Plant Physiology.

AtKC 1 and CIPK 23 Synergistically Modulate AKT 1-Mediated Low-Potassium Stress Responses in Arabidopsis 1 [ OPEN ]

Ziding Zhang, Wei-Hua Wu, Xue-Ping Wang, 2016 .

Prediction of Protein Ubiquitination Sites in Arabidopsis thaliana

Ziding Zhang, Shiping Yang, Ziding Zhang, 2019, Current Bioinformatics.

Prediction of Ubiquitination Sites by Using the Composition of k-Spaced Amino Acid Pairs

Yong-Zi Chen, Ziding Zhang, Ren-Xiang Yan, 2011, PloS one.

hCKSAAP_UbSite: improved prediction of human ubiquitination sites by exploiting amino acid pattern and properties.

Jiangning Song, Ziding Zhang, Ziding Zhang, 2013, Biochimica et biophysica acta.

SRAMP: prediction of mammalian N6-methyladenosine (m6A) sites based on sequence-derived features

Q. Cui, Ziding Zhang, P. Zeng, 2016, Nucleic acids research.

TIM-Finder: A new method for identifying TIM-barrel proteins

Ziding Zhang, Ren-Xiang Yan, X. Su, 2009, BMC Structural Biology.

Computational Identification of Protein Pupylation Sites by Using Profile-Based Composition of k-Spaced Amino Acid Pairs

Jinyan Li, Ziding Zhang, Yu Xue, 2015, PloS one.

The MERS-CoV Receptor DPP4 as a Candidate Binding Target of the SARS-CoV-2 Spike

Jianhong Lu, Ziding Zhang, Yan Xie, 2020, iScience.

The MERS-CoV Receptor DPP4 as a Candidate Binding Target of the SARS-CoV-2 Spike

Li Yang, Jianhong Lu, Xianyi Lian, 2020, iScience.

Using Weakly Conserved Motifs Hidden in Secretion Signals to Identify Type-III Effectors from Bacterial Pathogen Genomes

Ziding Zhang, Xiaobao Dong, Ziding Zhang, 2013, PloS one.

Exploring the sequence‐structure protein landscape in the glycosyltransferase family

Ziding Zhang, M. Grigorov, S. Kochhar, 2003, Protein science : a publication of the Protein Society.

Predicting Protein Phosphorylation Sites with Neuralgenetic Network Algorithm

Ziding Zhang, Yong-Zi Chen, Yu-Rong Tang, 2007, 2007 1st International Conference on Bioinformatics and Biomedical Engineering.

Prediction of outer membrane proteins by combining the position- and composition-based features of sequence profiles.

Renxiang Yan, Weiwen Cai, Ziding Zhang, 2014, Molecular bioSystems.

Computational characterization of parallel dimeric and trimeric coiled-coils using effective amino acid indices.

Jiangning Song, Ziding Zhang, Chen Li, 2015, Molecular bioSystems.

PhosphoPredict: A bioinformatics tool for prediction of human kinase-specific phosphorylation substrates and sites by integrating heterogeneous feature selection

Geoffrey I. Webb, Jiangning Song, Tatsuya Akutsu, 2017, Scientific Reports.

Structural Propensities of Human Ubiquitination Sites: Accessibility, Centrality and Local Conformation

Jiangning Song, Sixue Liu, Ziding Zhang, 2013, PloS one.

The Hybrid Protein Interactome Contributes to Rice Heterosis as Epistatic Effects.

Ziding Zhang, Xiangfeng Wang, Hang He, 2019, The Plant journal : for cell and molecular biology.

An Overview of the De Novo Prediction of Enzyme Catalytic Residues (Supplementry file)

Dongbin Zhao, Ziding Zhang, Yu-Rong Tang, 2009 .

Deciphering the Arabidopsis Floral Transition Process by Integrating a Protein-Protein Interaction Network and Gene Expression Data1[W]

Ziding Zhang, Fei He, Yuan Zhou, 2010, Plant Physiology.

Identification of WD40 repeats by secondary structure-aided profile-profile alignment.

Ziding Zhang, Jinyan Li, Chuan Wang, 2016, Journal of theoretical biology.

Comprehensive analysis of tandem amino acid repeats from ten angiosperm genomes

Ziding Zhang, Yuan Zhou, Jing Liu, 2011, BMC Genomics.

Computational Studies of Ligand-Receptor Interactions in Bitter Taste Receptors

Ziding Zhang, M. Grigorov, L. Miguet, 2006, Journal of receptor and signal transduction research.

PlaPPISite: a comprehensive resource for plant protein-protein interaction sites

Ziding Zhang, H. Qi, Shiping Yang, 2020, BMC Plant Biology.

Coordinated regulation of core and accessory genes in the multipartite genome of Sinorhizobium fredii

Ziding Zhang, C. Tian, W. Chen, 2018, PLoS genetics.

Comparative Analysis of the Genomes of Two Field Isolates of the Rice Blast Fungus Magnaporthe oryzae

Liyuan Liu, R. Dean, Songnian Hu, 2012, PLoS genetics.

Ornithorhynchus anatinus (Platypus) Links the Evolution of Immunoglobulin Genes in Eutherian Mammals and Nonmammalian Tetrapods12

Ziding Zhang, Liming Ren, Xiaoxiang Hu, 2009, The Journal of Immunology.

TetrapodsEutherian Mammals and Nonmammalian the Evolution of Immunoglobulin Genes in (Platypus) Links Ornithorhynchus anatinus

Ziding Zhang, Liming Ren, Xiaoxiang Hu, 2009 .

Competition-cooperation relationship networks characterize the competition and cooperation between proteins

Ziding Zhang, Yuan Zhou, Hong Li, 2015, Scientific Reports.

Large scale genomic and transcriptomic profiles of rice hybrids revealed a novel universal mechanism underlying yield heterosis

Yan Liu, Ziding Zhang, T. Yang, 2021 .

AraPPISite: a database of fine-grained protein–protein interaction site annotations for Arabidopsis thaliana

Ziding Zhang, Chuan Wang, Chuan Wang, 2016, Plant Molecular Biology.

Identification of Catalytic Residues Using a Novel Feature that Integrates the Microenvironment and Geometrical Location Properties of Residues

Ziding Zhang, Jiangning Song, Yong-Jun Zhang, 2012, PloS one.

MetalExplorer, a Bioinformatics Tool for the Improved Prediction of Eight Types of Metal-Binding Sites Using a Random Forest Algorithm with Two- Step Feature Selection

Geoffrey I. Webb, Jiangning Song, Chen Li, 2017 .

The Bifidobacterium dentium Bd1 Genome Sequence Reflects Its Genetic Adaptation to the Human Oral Cavity

Marcus J. Claesson, Bernard Henrissat, Alberto Ferrarini, 2009, PLoS genetics.

Characterization of the Serpin-Encoding Gene of Biﬁdobacterium breve 210B (cid:1) †

Aldert L. Zomer, D. Sinderen, Ziding Zhang, 2010 .

Proteome-wide prediction and analysis of the Cryptosporidium parvum protein–protein interaction network through integrative methods

Ziding Zhang, Xiaodi Yang, Tianpeng Wang, 2022, Computational and structural biotechnology journal.

Transcriptome analysis reveals physiological characteristics required for magnetosome formation in Magnetospirillum gryphiswaldense MSR-1.

Ziding Zhang, Lei Wang, Yuan Zhou, 2016, Environmental microbiology reports.

The MERS-CoV Receptor DPP4 as a Candidate Binding Target of the SARS-CoV-2 Spike

Jianhong Lu, Ziding Zhang, Yan Xie, 2020, iScience.

Characterization of Calcium-Dependent Protein Kinase 2A, a Potential Drug Target Against Cryptosporidiosis

Ziding Zhang, Lihua Xiao, Yaqiong Guo, 2022, Frontiers in Microbiology.

Understanding Human-Virus Protein-Protein Interactions Using a Human Protein Complex-Based Analysis Framework

Xianyi Lian, Ziding Zhang, Xiaobao Dong, 2019, mSystems.

Prediction and analysis of human-herpes simplex virus type 1 protein-protein interactions by integrating multiple methods

Ziding Zhang, Shiping Yang, Xianyi Lian, 2020, Quant. Biol..

The MERS-CoV Receptor DPP4 as a Candidate Binding Target of the SARS-CoV-2 Spike

Jianhong Lu, Ziding Zhang, Li Yang, 2020, iScience.

AbAgIntPre: A deep learning method for predicting antibody-antigen interactions based on sequence information

Ziding Zhang, Yuan Zhou, Yan Huang, 2022, Frontiers in Immunology.

Critical roles of amino acids Ser231, His107 and Asp156 of Staphylococcus sciuri exfoliative toxin C (ExhC) in the induction of skin exfoliations in neonate mice

Ziding Zhang, Fei He, Shijun J. Zheng, 2011, Biologia.

Large-scale genomic and transcriptomic profiles of rice hybrids reveal a core mechanism underlying heterosis

Yan Liu, Ziding Zhang, T. Yang, 2022, Genome biology.

Prediction of protein–protein interactions between Ralstonia solanacearum and Arabidopsisthaliana

Ziding Zhang, Fei He, You-Liang Peng, 2012, Amino Acids.

Rhizobial migration toward roots mediated by FadL-ExoFQP modulation of extracellular long-chain AHLs

Ziding Zhang, C. Tian, Renguo Wang, 2023, The ISME Journal.

Badh2, Encoding Betaine Aldehyde Dehydrogenase, Inhibits the Biosynthesis of 2-Acetyl-1-Pyrroline, a Major Component in Rice Fragrance[W]

Ziding Zhang, Fei He, Mingliang Xu, 2008, The Plant Cell Online.

A new class of anti-thrombosis hexahydropyrazino-[1',2':1,6]pyrido-[3,4-b]-indole-1,4-dions: design, synthesis, logK determination, and QSAR analysis.

Ziding Zhang, Ming Zhao, Shiqi Peng, 2007, Bioorganic & medicinal chemistry.

DescFold: A web server for protein fold recognition

Chuan Wang, Ziding Zhang, Ren-Xiang Yan, 2009, BMC Bioinformatics.

Exploiting Bifidobacterium genomes: the molecular basis of stress response.

Ziding Zhang, M. Ventura, D. van Sinderen, 2007, International journal of food microbiology.

Sympatric Recombination in Zoonotic Cryptosporidium Leads to Emergence of Populations with Modified Host Preference

Ziding Zhang, Lihua Xiao, Yaqiong Guo, 2022, Molecular biology and evolution.

Comparative Characterization of CpCDPK1 and CpCDPK9, Two Potential Drug Targets against Cryptosporidiosis

Ziding Zhang, Lihua Xiao, Yaqiong Guo, 2022, Microorganisms.

Comparative Study of Two Insulinlike Proteases in Cryptosporidium parvum

Ziding Zhang, Lihua Xiao, Yaqiong Guo, 2021, Microorganisms.

Three chromosome-level duck genome assemblies provide insights into genomic variation during domestication

Denye N. Ogeh, Fergal J. Martin, D. Burt, 2021, Nature Communications.

N-[2-(5,5-dimethyl-1,3-dioxane-2-yl)ethyl]amino acids: their synthesis, anti-inflammatory evaluation and QSAR analysis.

Ziding Zhang, Ming Zhao, Shiqi Peng, 2008, European journal of medicinal chemistry.

Human Gene Functional Network-Informed Prediction of HIV-1 Host Dependency Factors

Xiaodi Yang, Yan Huang, Xianyi Lian, 2020, mSystems.

The ClgR Protein Regulates Transcription of the clpP Operon in Bifidobacterium breve UCC 2003

Ziding Zhang, M. Cronin, M. Ventura, 2005, Journal of bacteriology.

Isolation of SARS-CoV-2-related coronavirus from Malayan pangolins

Ziding Zhang, Niu Zhou, Yongyi Shen, 2020, Nature.

MucR Is Required for Transcriptional Activation of Conserved Ion Transporters to Support Nitrogen Fixation of Sinorhizobium fredii in Soybean Nodules.

Ziding Zhang, Yue Hu, C. Tian, 2016, Molecular plant-microbe interactions : MPMI.

Characterization of the MHC class II α-chain gene in ducks

Ziding Zhang, Jing Wang, Liming Ren, 2011, Immunogenetics.

Large-scale transcriptome analysis reveals arabidopsis metabolic pathways are frequently influenced by different pathogens

Ziding Zhang, Zhenhong Jiang, Ziding Zhang, 2017, Plant Molecular Biology.

Genetic analysis and morphological identification of pilus-like structures in members of the genus Bifidobacterium

Ziding Zhang, Fei He, C. Rivetti, 2011, Microbial cell factories.

Characterization of the Serpin-Encoding Gene of Bifidobacterium breve 210B

Aldert L. Zomer, Ziding Zhang, M. Delledonne, 2010, Applied and Environmental Microbiology.

ZincExplorer: an accurate hybrid method to improve the prediction of zinc-binding sites from protein sequences.

Jiangning Song, Ziding Zhang, Ziding Zhang, 2013, Molecular bioSystems.

Revealing Shared and Distinct Gene Network Organization in Arabidopsis Immune Responses by Integrative Analysis1

Ziding Zhang, Xiaobao Dong, Zhenhong Jiang, 2015, Plant Physiology.

Network-based analysis of virulence factors for uncovering Aeromonas veronii pathogenesis

Ziding Zhang, Xiang Ma, Hong Li, 2021, BMC Microbiology.

Structural insights into the interactions and epigenetic functions of human nucleic acid repair protein ALKBH6

Ziding Zhang, Zhongzhou Chen, Wei Wu, 2022, The Journal of biological chemistry.

Two distinct sites are essential for virulent infection and support of variant satellite RNA replication in spontaneous beet black scorch virus variants.

Ziding Zhang, Yuan Zhou, Xianbing Wang, 2012, The Journal of general virology.

MDP25, A Novel Calcium Regulatory Protein, Mediates Hypocotyl Cell Elongation by Destabilizing Cortical Microtubules in Arabidopsis[C][W][OA]

Ziding Zhang, Yuan Zhou, Yan Zhang, 2011, Plant Cell.

Phosphatidic acid–regulated SOS2 controls sodium and potassium homeostasis in Arabidopsis under salt stress

Ziding Zhang, W. Jin, Wenhua Zhang, 2023, The EMBO journal.

The AtMAP65-1 cross-bridge between microtubules is formed by one dimer.

Ziding Zhang, Hua Li, M. Yuan, 2007, Plant & cell physiology.

Comparison of a homology model and the crystallographic structure of human 11β-hydroxysteroid dehydrogenase type 1 (11βHSD1) in a structure-based identification of inhibitors

Laurence Miguet, Ziding Zhang, Maryse Barbier, 2006, J. Comput. Aided Mol. Des..

Isolation and Characterization of 2019-nCoV-like Coronavirus from Malayan Pangolins

Ziding Zhang, Niu Zhou, Yahong Liu, 2020, bioRxiv.

Prediction of mucin-type O-glycosylation sites in mammalian proteins using the composition of k-spaced amino acid pairs

Ziding Zhang, Yong-Zi Chen, Yu-Rong Tang, 2008, BMC Bioinformatics.

Transfer learning via multi-scale convolutional neural layers for human–virus protein–protein interaction prediction

S. Wuchty, Ziding Zhang, Shiping Yang, 2021, bioRxiv.

Prediction of human-virus protein-protein interactions through a sequence embedding-based machine learning method

Stefan Wuchty, Shiping Yang, Xiaodi Yang, 2019, Computational and structural biotechnology journal.

Accurate in silico identification of species-specific acetylation sites by integrating protein sequence-derived and functional features

Geoffrey I. Webb, Jiangning Song, Huilin Wang, 2014, Scientific Reports.

Towards more accurate prediction of ubiquitination sites: a comprehensive review of current methods, tools and features

Jiangning Song, Yuan Zhou, Zhen Chen, 2015, Briefings Bioinform..

An Important Role for Purifying Selection in Archaeal Genome Evolution

Ziding Zhang, Fei He, Zhe Lyu, 2017, mSystems.

HVIDB: a comprehensive database for human-virus protein-protein interactions

Stefan Wuchty, Xiaodi Yang, Xianyi Lian, 2021, Briefings Bioinform..

Pathogenicity Genes in Ustilaginoidea virens Revealed by a Predicted Protein-Protein Interaction Network.

Tom Hsiang, Kang Zhang, Wenxian Sun, 2017, Journal of proteome research.

ASTool: An Easy-to-Use Tool to Accurately Identify Alternative Splicing Events from Plant RNA-Seq Data

Ziding Zhang, H. Qi, Tianpeng Wang, 2022, International journal of molecular sciences.

Isolation of SARS-CoV-2-related coronavirus from Malayan pangolins

Ziding Zhang, Niu Zhou, Yongyi Shen, 2020, Nature.

The zinc-finger bearing xenogeneic silencer MucR in α-proteobacteria balances adaptation and regulatory integrity

Ziding Zhang, C. Tian, Jian Jiao, 2021, The ISME Journal.

Comparative Analysis of Core and Accessory Genes in Coexpression Network.

Ziding Zhang, C. Tian, Pan Zhang, 2021, Methods in molecular biology.

Computational design of a cutinase for plastic biodegradation by mining molecular dynamics simulations trajectories

Ziding Zhang, Y. Zheng, Quanfeng Liang, 2022, Computational and structural biotechnology journal.

Identifying Coevolution Between Amino Acid Residues in Protein Families: Advances in the Improvement and Evaluation of Correlated Mutation Algorithms

Jiangning Song, Xiaoqin Li, Ziding Zhang, 2013 .

Computational enzyme design approaches with significant biological outcomes: progress and challenges

Jiangning Song, Xiaoman Li, Ziding Zhang, 2012, Computational and structural biotechnology journal.

Prediction of protein–protein interactions between fungus (Magnaporthe grisea) and rice (Oryza sativa L.)

Shiwei Ma, Andrew Harrison, Qi Song, 2019, Briefings Bioinform..

Outer membrane proteins can be simply identified using secondary structure element alignment

Zhen Chen, Ziding Zhang, Ren-Xiang Yan, 2011, BMC Bioinformatics.

Enhancing thermostability of a psychrophilic alpha-amylase by the structural energy optimization in the trajectories of molecular dynamics simulations.

Ziding Zhang, Jian Tian, N. Wu, 2019, International journal of biological macromolecules.

Network Analysis Reveals a Common Host–Pathogen Interaction Pattern in Arabidopsis Immune Responses

Ziding Zhang, Ziding Zhang, Yuan Zhou, 2017, Front. Plant Sci..

Evaluation of protein phosphorylation site predictors.

Yu-Rong Tang, Huaqin He, Ziding Zhang, 2010, Protein and peptide letters.

Systems understanding of plant–pathogen interactions through genome-wide protein–protein interaction networks

Ziding Zhang, Ziding Zhang, Hong Li, 2016 .

How high G+C Gram-positive bacteria and in particular bifidobacteria cope with heat stress: protein players and regulators.

Ziding Zhang, M. Ventura, D. van Sinderen, 2006, FEMS microbiology reviews.

Lineage-Specific Rewiring of Core Pathways Predating Innovation of Legume Nodules Shapes Symbiotic Efficiency

Ziding Zhang, C. Tian, Ran Zhao, 2021, mSystems.

Transcriptional Landscapes of Long Non-coding RNAs and Alternative Splicing in Pyricularia oryzae Revealed by RNA-Seq

Ziding Zhang, You-Liang Peng, Junbo Peng, 2021, Frontiers in Plant Science.

Deep Learning-Powered Prediction of Human-Virus Protein-Protein Interactions

S. Wuchty, Ziding Zhang, Shiping Yang, 2022, Frontiers in Microbiology.

Current status and future perspectives of computational studies on human-virus protein-protein interactions

Ziding Zhang, Shiping Yang, Xianyi Lian, 2021, Briefings Bioinform..

Transfer learning via multi-scale convolutional neural layers for human-virus protein-protein interaction prediction

S. Wuchty, Ziding Zhang, Shiping Yang, 2021, bioRxiv.

SPAR: a random forest-based predictor for self-interacting proteins with fine-grained domain information

Jiangning Song, Chen Li, Shiping Yang, 2016, Amino Acids.

Insights into genomic evolution from the chromosomal and mitochondrial genomes of Ustilaginoidea virens

Ziding Zhang, Kang Zhang, Wenxian Sun, 2021 .

An improved prediction of catalytic residues in enzyme structures.

Yong-Zi Chen, Yu-Rong Tang, Zhi-Ya Sheng, 2008, Protein engineering, design & selection : PEDS.

Crystal structure of the Locusta migratoria odorant binding protein.

Ziding Zhang, Zhongzhou Chen, Wei Wu, 2015, Biochemical and biophysical research communications.

Molecular Characterization of hsp20, Encoding a Small Heat Shock Protein of Bifidobacterium breve UCC2003

Ziding Zhang, M. Ventura, D. van Sinderen, 2007, Applied and Environmental Microbiology.

Network-Based Comparative Analysis of Arabidopsis Immune Responses to Golovinomyces orontii and Botrytis cinerea Infections

Ziding Zhang, Xiaobao Dong, Zhenhong Jiang, 2016, Scientific Reports.

Characterization of Calcium-Dependent Protein Kinases 3, a Protein Involved in Growth of Cryptosporidium parvum

Ziding Zhang, R. Xu, Lihua Xiao, 2020, Frontiers in Microbiology.

Differential Coexpression Analysis Reveals Extensive Rewiring of Arabidopsis Gene Coexpression in Response to Pseudomonas syringae Infection

Ziding Zhang, Xiaobao Dong, Zhenhong Jiang, 2016, Scientific Reports.

An Integrative Computational Framework Based on a Two-Step Random Forest Algorithm Improves Prediction of Zinc-Binding Sites in Proteins

Jiangning Song, Tatsuya Akutsu, Kazuhiro Takemoto, 2012, PloS one.

Expression patterns and ligand binding characterization of Plus-C odorant-binding protein 14 from Adelphocoris lineolatus (Goeze).

Ziding Zhang, Liang Sun, Yongjun Zhang, 2019, Comparative biochemistry and physiology. Part B, Biochemistry & molecular biology.

Crysalis: an integrated server for computational analysis and design of protein crystallization

Liubin Feng, Geoffrey I. Webb, Jiangning Song, 2016, Scientific Reports.

MAPanalyzer: a novel online tool for analyzing microtubule-associated proteins

Yuan Zhou, Shiping Yang, Ziding Zhang, 2015, Database J. Biol. Databases Curation.

PredPPCrys: Accurate Prediction of Sequence Cloning, Protein Production, Purification and Crystallization Propensity from Protein Sequences Using Multi-Step Heterogeneous Feature Fusion and Selection

Jiangning Song, Huilin Wang, Mingjun Wang, 2014, PloS one.

A new class of analgesic agents toward prostacyclin receptor inhibition: synthesis, biological studies and QSAR analysis of 1-hydroxyl-2-substituted phenyl-4,4,5,5-tetramethylimidazolines.

Ziding Zhang, Ming Zhao, Shiqi Peng, 2008, European journal of medicinal chemistry.

Novel 1-oxyl-2-substitutedphenyl-4,4,5,5-tetramethylimidazolines: synthesis, selectively analgesic action, and QSAR analysis.

Ziding Zhang, Ming Zhao, Shiqi Peng, 2007, Bioorganic & medicinal chemistry.

GANNPhos: a new phosphorylation site predictor based on a genetic algorithm integrated neural network.

Yong-Zi Chen, Yu-Rong Tang, Ziding Zhang, 2007, Protein engineering, design & selection : PEDS.

Studies on log P, retention time and QSAR of 2-substituted phenylnitronyl nitroxides as free radical scavengers

Ziding Zhang, Ming Zhao, Shiqi Peng, 2007 .

BEAN 2.0: an integrated web resource for the identification and functional analysis of type III secreted effectors

Ziding Zhang, Xiaobao Dong, Xiaotian Lu, 2015, Database J. Biol. Databases Curation.

Physiological characteristics of Magnetospirillum gryphiswaldense MSR-1 that control cell growth under high-iron and low-oxygen conditions

Ziding Zhang, Yuan Zhou, Youliang Peng, 2017, Scientific Reports.

Descriptor‐based protein remote homology identification

Ziding Zhang, Sunil Kochhar, Ziding Zhang, 2005, Protein science : a publication of the Protein Society.

Gene coexpression network during ontogeny in the yellow fever mosquito, Aedes aegypti

Ziding Zhang, Qiwen Huang, Chenghong Liao, 2023, BMC Genomics.

Comparison of linear gap penalties and profile-based variable gap penalties in profile-profile alignments

Chuan Wang, Xiao-Feng Wang, Jing-Na Si, 2011, Comput. Biol. Chem..

Critical assessment and performance improvement of plant‐pathogen protein‐protein interaction prediction methods

Yuan Zhou, Shiping Yang, Ziding Zhang, 2019, Briefings Bioinform..

Operating Mechanism and Molecular Dynamics of Pheromone-Binding Protein ASP1 as Influenced by pH

Ziding Zhang, Yong-Jun Zhang, Jinpu Yu, 2014, PloS one.

A predicted protein-protein interaction network of the filamentous fungus Neurospora crassa.

Ting-You Wang, Ziding Zhang, Ziding Zhang, 2011, Molecular bioSystems.

Characterization of Three Calcium-Dependent Protein Kinases of Cryptosporidium parvum

Ziding Zhang, R. Xu, Lihua Xiao, 2021, Frontiers in Microbiology.

Deep learning-assisted prediction of protein-protein interactions in Arabidopsis thaliana.

S. Wuchty, Ziding Zhang, Shiping Yang, 2023, The Plant Journal.

SGPPI: structure-aware prediction of protein-protein interactions in rigorous conditions with graph convolutional network

S. Wuchty, Ziding Zhang, Yuan Zhou, 2023, Briefings Bioinform..

Multi-scale Convolutional Neural Networks for the Prediction of Human-virus Protein Interactions

Stefan Wuchty, Xiaodi Yang, Ziding Zhang, 2021, ICAART.

Can simple codon pair usage predict protein-protein interaction?

Jiangning Song, Ziding Zhang, Ziding Zhang, 2012, Molecular bioSystems.

Cyanidin-3-o-glucoside directly binds to ERα36 and inhibits EGFR-positive triple-negative breast cancer

Ziding Zhang, Shiping Yang, Xiru Li, 2016, Oncotarget.

Tobacco necrosis virus-AC single coat protein amino acid substitutions determine host-specific systemic infections of Nicotiana benthamiana and soybean.

Ziding Zhang, Xiaoling Wang, Yongliang Zhang, 2020, Molecular plant-microbe interactions : MPMI.

Potential for dramatic improvement in sequence alignment against structures of remote homologous proteins by extracting structural information from multiple structure alignment.

Carsten Peterson, Guoguang Lu, Ziding Zhang, 2003, Journal of molecular biology.

The clpB gene of Bifidobacterium breve UCC 2003: transcriptional analysis and first insights into stress induction.

Ziding Zhang, M. Ventura, D. van Sinderen, 2005, Microbiology.

Genome-wide analysis of enzyme structure-function combination across three domains of life.

Yu-Rong Tang, Ziding Zhang, Ziding Zhang, 2007, Protein and peptide letters.

Prp19-associated splicing factor Cwf15 regulates fungal virulence and development in the rice blast fungus.

Ziding Zhang, You-Liang Peng, Rui-Jin Wang, 2021, Environmental microbiology.

PlaD: A Transcriptomics Database for Plant Defense Responses to Pathogens, Providing New Insights into Plant Immune System

Kang Zhang, Shiping Yang, Huan Qi, 2018, Genom. Proteom. Bioinform..

GPCRserver: an accurate and novel G protein-coupled receptor predictor.

Renxiang Yan, Weiwen Cai, Ziding Zhang, 2014, Molecular bioSystems.

Physiological characteristics of Magnetospirillum gryphiswaldense MSR-1 that control cell growth under high-iron and low-oxygen conditions

Y. Li, Ziding Zhang, Lei Wang, 2017, Scientific Reports.

Characterization of Dense Granule Metalloproteinase INS-16 in Cryptosporidium parvum

Ziding Zhang, R. Xu, Lihua Xiao, 2022, International journal of molecular sciences.

Machine-Learning-Based Predictor of Human-Bacteria Protein-Protein Interactions by Incorporating Comprehensive Host-Network Properties.

Chen Fu, Ziding Zhang, Xianyi Lian, 2019, Journal of proteome research.

PlaASDB: a comprehensive database of plant alternative splicing events in response to stress

Ziding Zhang, H. Qi, Tianpeng Wang, 2023, BMC Plant Biology.

PlaD: A Transcriptomics Database for Plant Defense Responses to Pathogens, Providing New Insights into Plant Immune System

Ziding Zhang, Kang Zhang, Fei He, 2018, Genom. Proteom. Bioinform..

SPAR: a random forest-based predictor for self-interacting proteins with fine-grained domain information

Ziding Zhang, Jiangning Song, Shiping Yang, 2016, Amino Acids.

The clpB gene of Bifidobacterium breve UCC 2003: transcriptional analysis and first insights into stress induction.

Ziding Zhang, M. Ventura, D. van Sinderen, 2005, Microbiology.