Areas of Interest
The goal of the Zhang lab is to understand the fundamental relations between protein sequence, structure and function. The major focus of the lab is to develop new bioinformatics algorithms to predict 3-dimensional protein structure from the amino acid sequence and deduce the biological function of proteins by comparing the predicted structures with the function databases.
A number of computational methods developed by the Zhang lab have been demonstrated in the CASP experiments to be the world's best for protein structure prediction and function annotation. The lab is currently working on extending the developed protein modeling algorithms for protein design and structure-based drug discovery. They are especially interested in modeling G protein-coupled receptors and the interactions with the associated ligands with the purpose of developing new drugs to regulate these interactions. Read more about Zhang lab research.
Honors & Awards
DeLano Award for Computational Biosciences, ASBMB, 2020
Basic Science Research Award, University of Michigan Medical School, 2013
Alfred P. Sloan Award, 2008
CAREER Award, National Science Foundation, 2008
A New Protocol for Atomic-Level Protein Structure Modeling and Refinement Using Low-to-Medium Resolution Cryo-EM Density Maps.
Zhang B, Zhang X, Pearce R, Shen HB, Zhang Y.
J Mol Biol. 2020; 432: 5365–77.
Virtual Screening of Human Class-A GPCRs Using Ligand Profiles Built on Multiple Ligand–Receptor Interactions.
Chan WKB, Zhang Y.
J Mol Biol. 2020; 432: 4872–90.
De novo design of protein peptides to block association of the SARS-CoV-2 spike protein with human ACE2.
Huang X, Pearce R, Zhang Y.
Aging. 2020; 12: 11263–76.
Detecting Gene Ontology misannotations using taxon-specific rate ratio comparisons.
Wei X, Zhang C, Freddolino PL, Zhang Y.
Bioinformatics. 2020; 36: 4383–8.
Protein Structure and Sequence Reanalysis of 2019-nCoV Genome Refutes Snakes as Its Intermediate Host and the Unique Similarity between Its Spike Protein Insertions and HIV-1.
Zhang C, Zheng W, Huang X, Bell EW, Zhou X, Zhang Y.
J Proteome Res. 2020; 19: 1351–60.
FASPR: an open-source tool for fast and accurate protein side-chain packing.
Huang X, Pearce R, Zhang Y.
Bioinformatics. 2020; 36: 3758–65.
FUpred: Detecting protein domains through deep-learning based contact map prediction.
Zheng W, Zhou X, Wuyun Q, Pearce R, Li Y, Zhang Y.
Bioinformatics. 2020; 36: 3749–57.
SSIPe: accurately estimating protein-protein binding affinity change upon mutations using evolutionary profiles in combination with an optimized physical energy function.
Huang X, Zheng W, Pearce R, Zhang Y.
Bioinformatics. 2020; 36: 2429–37.
For a list of publications at Google Scholar, click HERE