Home
Software
Benchmark
Performance
Decoys
ZLAB
Docking sites
References
Contact
|
|
-
Hawse WF, Champion MM, Joyce MV, Hellman LM, Houssain M, Ryan V, Pierce BG, Weng Z, Baker BM. (2012)
Cutting Edge: Evidence for a dynamically driven T cell signaling mechanism.
Journal of Immunology, In Press.
Abstract
-
Chu SW, Noyes MB, Christensen RG, Pierce BG, Zhu LJ, Weng Z, Stormo GD, Wolfe SA. (2012)
Exploring the DNA-recognition potential of homeodomains.
Genome Research, In Press.
Abstract
-
Vreven T., Hwang H., Pierce B.G., Weng Z. (2012)
Prediction of protein-protein binding free energies.
Protein Science, 21(2) 396-404.
Abstract
-
Pierce B.G., Hourai Y., Weng Z. (2011)
Accelerating protein docking in ZDOCK using an advanced 3D convolution library.
PLoS One, 6(9): e24657.
Abstract
-
Vreven T., Hwang H., Weng Z. (2011)
Integrating atom-based and residue-based scoring functions for protein-protein docking.
Protein Science, 20(9):1576-1586.
Abstract
-
Hwang H., Vreven T., Whitfield T.W., Wiehe K., Weng Z. (2011)
A machine learning approach for the prediction of protein surface loop flexibility.
Proteins, 79(8):2467-2474.
Abstract
-
Kastritis P., Moal I., Hwang H., Weng Z., Bates P., Bonvin A., Janin J. (2011)
A structure-based benchmark for protein-protein binding affinity.
Protein Science, 20(3):482-91.
Abstract
-
Pierce B.G., Haidar J.N., Yu Y., and Weng Z. (2010)
Combinations of affinity-enhancing mutations in a T cell receptor reveal highly nonadditive effects within and between complementarity determining regions and chains.
Biochemistry, 49(33):7050-7059.
Abstract
-
Hwang H., Vreven T., Janin J., Weng Z. (2010)
Protein-Protein Docking Benchmark Version 4.0.
Proteins, 78(15):3111-3114.
Abstract
-
Hwang H., Vreven T., Pierce B., Hung J., Weng Z. (2010)
Performance of ZDOCK and ZRANK in CAPRI round 13-19.
Proteins, 78(15):3104-10.
Abstract
-
Haidar J.N., Pierce B., Yu Y., Tong W., Li M., and Weng Z. (2008)
Structure-Based Design of a T-Cell Receptor Leads to Nearly 100-Fold Improvement in Binding Affinity for pepMHC.
Proteins, 74(4):948-960.
Abstract
-
Hwang H., Pierce B., Mintseris J., Janin J., Weng Z. (2008)
Protein-Protein Docking Benchmark Version 3.0.
Proteins, 73(3):705-709.
Abstract
-
Pierce B., Weng Z. (2008)
A Combination of Rescoring and Refinement Significantly Improves Protein Docking Performance.
Proteins, 72(1):270-279.
Abstract
-
Wiehe K, Pierce B, Tong W, Hwang H, Mintseris J, Weng Z (2007)
The Performance of ZDOCK and ZRANK in Rounds 6-11 of CAPRI.
Proteins, 69(4), 719-725.
Abstract
-
Mintseris J, Pierce B, Wiehe K, Anderson R, Chen R, Weng Z (2007)
Integrating Statistical Pair Potentials into Protein Complex Prediction.
Proteins, 69(3), 511-520.
Abstract
-
Pierce B, Weng Z (2007)
ZRANK: Reranking Protein Docking Predictions with an Optimized Energy Function.
Proteins 67(4), 1078-1086.
Abstract
-
Pierce B, Phillips AT, Weng Z (2007)
Structure Prediction of Protein Complexes
In Xu Y, Xu D & Liang J. (Eds.), Computational Methods for Protein Structure Prediction and Modeling Volume 2: Structure Prediction. (pp. 109-134). New York: Springer.
Abstract
-
Mintseris J, Wiehe K, Pierce B, Anderson R, Chen R, Janin J, Weng Z (2005)
Protein-Protein Docking Benchmark 2.0: an update.
Proteins 60(2), 214-216.
Abstract
-
Wiehe K, Pierce B, Mintseris J, Tong W, Anderson R, Chen R, Weng Z (2005)
ZDOCK and RDOCK performance in CAPRI rounds 3, 4, and 5.
Proteins 60(2), 207-21.
Abstract
-
Pierce B, Tong W, Weng Z (2005)
M-ZDOCK: A Grid-based Approach for Cn Symmetric Multimer Docking.
Bioinformatics 21(8), 1472-1476.
Abstract
-
Mintseris J, Weng Z (2003)
Atomic Contact Vectors in Protein-Protein Recognition.
Proteins 53, 629-639.
Abstract
-
Li L, Chen R (joint first authors), Weng Z (2003)
RDOCK: Refinement of Rigid-body Protein Docking Predictions.
Proteins 53, 693-707.
Abstract
-
Chen R, Li L, Weng Z (2003)
ZDOCK: An Initial-stage Protein-Docking Algorithm.
Proteins 52, 80-87.
Abstract
-
Chen R, Tong W, Mintseris J, Li L, Weng Z (2003)
ZDOCK Predictions for the CAPRI Challenge.
Proteins 52, 68-73.
Abstract
-
Chen R, Mintseris J, Janin J, Weng Z (2003)
A Protein-Protein Docking Benchmark.
Proteins 52, 88-91.
Abstract
-
Chen R, Weng Z (2003) A Novel Shape Complementarirty Scoring Function
for Protein-Protein Docking.
Proteins 51, 397-408.
Abstract
-
Chen R, Weng Z (2002) Docking Unbound Proteins Using Shape
Complementarity, Desolvation, and Electrostatics. Proteins 47, 281-294.
Abstract
|
