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  • 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
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