Zhang, Yang

The I-TASSER Suite: protein structure and function prediction

Yang, J., Yan, R., Roy, A., Xu, D., Poisson, J., & Zhang, Y. (2015) · Nature Methods

Protein Structure and DynamicsEnzyme Structure and Function

Cited by 5,596

I-TASSER server for protein 3D structure prediction

Zhang, Y. (2008) · BMC Bioinformatics

Protein Structure and DynamicsEnzyme Structure and Function

Cited by 5,124

TM-align: a protein structure alignment algorithm based on the TM-score

Zhang, Y. (2005) · Nucleic Acids Research

Protein Structure and DynamicsEnzyme Structure and Function

Cited by 3,774

Scoring function for automated assessment of protein structure template quality

Zhang, Y., & Skolnick, J. (2004) · Proteins: Structure, Function, and Bioinformatics

Protein Structure and DynamicsEnzyme Structure and Function

Cited by 2,392

Complementary Sequence-Mediated Exon Circularization

Zhang, X.-O., Wang, H.-B., Zhang, Y., Lu, X., Chen, L.-L., & Yang, L. (2014) · Cell

Circular RNAs in diseasesRNA Research and Splicing

Cited by 1,999

Extensive translation of circular RNAs driven by N6-methyladenosine

Yang, Y., Fan, X., Mao, M., Song, X., Wu, P., Zhang, Y., Jin, Y., Yang, Y., Chen, L.-L., Wang, Y., et al. (2017) · Cell Research

Circular RNAs in diseasesRNA modifications and cancer

Cited by 1,855

How significant is a protein structure similarity with TM-score = 0.5?

Xu, J., & Zhang, Y. (2010) · Bioinformatics

Protein Structure and DynamicsEnzyme Structure and Function

Cited by 1,142

The Biogenesis of Nascent Circular RNAs

Zhang, Y., Xue, W., Li, X., Zhang, J., Chen, S., Zhang, J.-L., Yang, L., & Chen, L.-L. (2016) · Cell Reports

Circular RNAs in diseasesRNA Research and Splicing

Cited by 643

COFACTOR: improved protein function prediction by combining structure, sequence and protein–protein interaction information

Zhang, C., Freddolino, L., & Zhang, Y. (2017) · Nucleic Acids Research

Protein Structure and DynamicsBioinformatics and Genomic Networks

Cited by 606

US-align: universal structure alignments of proteins, nucleic acids, and macromolecular complexes

Zhang, C., Shine, M., Pyle, A. M., & Zhang, Y. (2022) · Nature Methods

Protein Structure and DynamicsEnzyme Structure and Function

Cited by 511

The CAFA challenge reports improved protein function prediction and new functional annotations for hundreds of genes through experimental screens

Zhou, N., Jiang, Y., Bergquist, T. R., Lee, A. J., Kacsoh, B. Z., Crocker, A. W., Lewis, K. A., Georghiou, G., Nguyen, H. N., Hamid, M. N., et al. (2019) · Genome Biology

Bioinformatics and Genomic NetworksGenomics and Phylogenetic Studies

Cited by 452

The protein structure prediction problem could be solved using the current PDB library

Zhang, Y., & Skolnick, J. (2005) · Proceedings of the National Academy of Sciences

Protein Structure and DynamicsEnzyme Structure and Function

Cited by 297

Protein structure prediction: when is it useful?

Zhang, Y. (2009) · Current Opinion in Structural Biology

Protein Structure and DynamicsEnzyme Structure and Function

Cited by 277

Deep‐learning contact‐map guided protein structure prediction in CASP13

Zheng, W., Li, Y., Zhang, C., Pearce, R., Mortuza, S. M., & Zhang, Y. (2019) · Proteins: Structure, Function, and Bioinformatics

Protein Structure and DynamicsEnzyme Structure and Function

Cited by 208

On the origin and highly likely completeness of single-domain protein structures

Zhang, Y., Hubner, I. A., Arakaki, A. K., Shakhnovich, E., & Skolnick, J. (2006) · Proceedings of the National Academy of Sciences

Protein Structure and DynamicsEnzyme Structure and Function

Cited by 197

Protein-Protein Complex Structure Predictions by Multimeric Threading and Template Recombination

Mukherjee, S., & Zhang, Y. (2011) · Structure

Protein Structure and DynamicsEnzyme Structure and Function

Cited by 174

ResPRE: high-accuracy protein contact prediction by coupling precision matrix with deep residual neural networks

Li, Y., Hu, J., Zhang, C., Yu, D.-J., & Zhang, Y. (2019) · Bioinformatics

Protein Structure and DynamicsMachine Learning in Bioinformatics

Cited by 158

BindProfX: Assessing Mutation-Induced Binding Affinity Change by Protein Interface Profiles with Pseudo-Counts

Xiong, P., Zhang, C., Zheng, W., & Zhang, Y. (2017) · Journal of Molecular Biology

Protein Structure and DynamicsComputational Drug Discovery Methods

Cited by 140

Predicting the Effect of Mutations on Protein-Protein Binding Interactions through Structure-Based Interface Profiles

Brender, J. R., & Zhang, Y. (2015) · PLOS Computational Biology

Protein Structure and DynamicsComputational Drug Discovery Methods

Cited by 140

Deep learning techniques have significantly impacted protein structure prediction and protein design

Pearce, R., & Zhang, Y. (2021) · Current Opinion in Structural Biology

Protein Structure and DynamicsMachine Learning in Bioinformatics

Cited by 127

Ensembling multiple raw coevolutionary features with deep residual neural networks for contact‐map prediction in CASP13

Li, Y., Zhang, C., Bell, E. W., Yu, D., & Zhang, Y. (2019) · Proteins: Structure, Function, and Bioinformatics

Protein Structure and DynamicsMachine Learning in Bioinformatics

Cited by 94

MetaGO: Predicting Gene Ontology of Non-homologous Proteins Through Low-Resolution Protein Structure Prediction and Protein–Protein Network Mapping

Zhang, C., Zheng, W., Freddolino, L., & Zhang, Y. (2018) · Journal of Molecular Biology

Bioinformatics and Genomic NetworksGenomics and Phylogenetic Studies

Cited by 80

Progressive assembly of multi-domain protein structures from cryo-EM density maps

Zhou, X., Li, Y., Zhang, C., Zheng, W., Zhang, G., & Zhang, Y. (2022) · Nature Computational Science

Advanced Electron Microscopy Techniques and ApplicationsProtein Structure and Dynamics

Cited by 75

Mapping Monomeric Threading to Protein–Protein Structure Prediction

Guerler, A., Govindarajoo, B., & Zhang, Y. (2013) · Journal of Chemical Information and Modeling

Protein Structure and DynamicsEnzyme Structure and Function

Cited by 73