| Year |
Citation |
Score |
| 2023 |
Liang S, Zhang C, Zhu M. Ab Initio Prediction of 3-D Conformations for Protein Long Loops with High Accuracy and Applications to Antibody CDRH3 Modeling. Journal of Chemical Information and Modeling. PMID 38018130 DOI: 10.1021/acs.jcim.3c01051 |
0.369 |
|
| 2022 |
Zheng D, Liang S, Zhang C. B-Cell Epitope Predictions Using Computational Methods. Methods in Molecular Biology (Clifton, N.J.). 2552: 239-254. PMID 36346595 DOI: 10.1007/978-1-0716-2609-2_12 |
0.333 |
|
| 2021 |
Liang S, Li Z, Zhan J, Zhou Y. De Novo protein design by an energy function based on series expansion in distance and orientation dependence. Bioinformatics (Oxford, England). PMID 34406339 DOI: 10.1093/bioinformatics/btab598 |
0.326 |
|
| 2020 |
Yao B, Zheng D, Liang S, Zhang C. SVMTriP: A Method to Predict B-Cell Linear Antigenic Epitopes. Methods in Molecular Biology (Clifton, N.J.). 2131: 299-307. PMID 32162263 DOI: 10.1007/978-1-0716-0389-5_17 |
0.396 |
|
| 2020 |
Liang S, Zheng D, Yao B, Zhang C. EPCES and EPSVR: Prediction of B-Cell Antigenic Epitopes on Protein Surfaces with Conformational Information. Methods in Molecular Biology (Clifton, N.J.). 2131: 289-297. PMID 32162262 DOI: 10.1007/978-1-0716-0389-5_16 |
0.412 |
|
| 2014 |
Yamashita K, Ikeda K, Amada K, Liang S, Tsuchiya Y, Nakamura H, Shirai H, Standley DM. Kotai Antibody Builder: automated high-resolution structural modeling of antibodies. Bioinformatics (Oxford, England). 30: 3279-80. PMID 25064566 DOI: 10.1093/Bioinformatics/Btu510 |
0.324 |
|
| 2014 |
Shirai H, Ikeda K, Yamashita K, Tsuchiya Y, Sarmiento J, Liang S, Morokata T, Mizuguchi K, Higo J, Standley DM, Nakamura H. High-resolution modeling of antibody structures by a combination of bioinformatics, expert knowledge, and molecular simulations. Proteins. 82: 1624-35. PMID 24756852 DOI: 10.1002/Prot.24591 |
0.388 |
|
| 2014 |
Liang S, Zhang C, Zhou Y. LEAP: highly accurate prediction of protein loop conformations by integrating coarse-grained sampling and optimized energy scores with all-atom refinement of backbone and side chains. Journal of Computational Chemistry. 35: 335-41. PMID 24327406 DOI: 10.1002/Jcc.23509 |
0.489 |
|
| 2013 |
Liang S, Zheng D, Standley DM, Guo H, Zhang C. A novel function prediction approach using protein overlap networks. Bmc Systems Biology. 7: 61-61. PMID 23866986 DOI: 10.1186/1752-0509-7-61 |
0.311 |
|
| 2013 |
Moretti R, Fleishman SJ, Agius R, Torchala M, Bates PA, Kastritis PL, Rodrigues JP, Trellet M, Bonvin AM, Cui M, Rooman M, Gillis D, Dehouck Y, Moal I, Romero-Durana M, ... ... Liang S, et al. Community-wide evaluation of methods for predicting the effect of mutations on protein-protein interactions. Proteins. 81: 1980-7. PMID 23843247 DOI: 10.1002/Prot.24356 |
0.402 |
|
| 2013 |
Yao B, Zheng D, Liang S, Zhang C. Conformational B-cell epitope prediction on antigen protein structures: a review of current algorithms and comparison with common binding site prediction methods. Plos One. 8: e62249. PMID 23620816 DOI: 10.1371/Journal.Pone.0062249 |
0.42 |
|
| 2012 |
Liang S, Zhang C, Sarmiento J, Standley DM. Protein Loop Modeling with Optimized Backbone Potential Functions Journal of Chemical Theory and Computation. 8: 1820-1827. PMID 26593673 DOI: 10.1021/Ct300131P |
0.425 |
|
| 2012 |
Yao B, Zhang L, Liang S, Zhang C. SVMTriP: a method to predict antigenic epitopes using support vector machine to integrate tri-peptide similarity and propensity. Plos One. 7: e45152. PMID 22984622 DOI: 10.1371/Journal.Pone.0045152 |
0.413 |
|
| 2011 |
Liang S, Zheng D, Zhang C, Standley DM. Fast and accurate prediction of protein side-chain conformations Bioinformatics. 27: 2913-2914. PMID 21873640 DOI: 10.1093/Bioinformatics/Btr482 |
0.453 |
|
| 2011 |
Liang S, Zhang C, Standley DM. Protein loop selection using orientation-dependent force fields derived by parameter optimization. Proteins. 79: 2260-2267. PMID 21574188 DOI: 10.1002/Prot.23051 |
0.375 |
|
| 2011 |
Liang S, Zhou Y, Grishin N, Standley DM. Protein side chain modeling with orientation-dependent atomic force fields derived by series expansions. Journal of Computational Chemistry. 32: 1680-6. PMID 21374632 DOI: 10.1002/Jcc.21747 |
0.411 |
|
| 2010 |
Liang S, Zheng D, Standley DM, Yao B, Zacharias M, Zhang C. EPSVR and EPMeta: prediction of antigenic epitopes using support vector regression and multiple server results. Bmc Bioinformatics. 11: 381. PMID 20637083 DOI: 10.1186/1471-2105-11-381 |
0.415 |
|
| 2010 |
Meroueh S, Liang S, Li L. Computational Design of Protein Interfaces with Receptor Flexibility Biophysical Journal. 98. DOI: 10.1016/J.Bpj.2009.12.2320 |
0.382 |
|
| 2009 |
Liang S, Zheng D, Zhang C, Zacharias M. Prediction of antigenic epitopes on protein surfaces by consensus scoring Bmc Bioinformatics. 10: 302-302. PMID 19772615 DOI: 10.1186/1471-2105-10-302 |
0.453 |
|
| 2009 |
Li L, Liang S, Pilcher MM, Meroueh SO. Incorporating receptor flexibility in the molecular design of protein interfaces. Protein Engineering, Design & Selection : Peds. 22: 575-86. PMID 19643976 DOI: 10.1093/Protein/Gzp042 |
0.371 |
|
| 2009 |
Liang S, Wang G, Zhou Y. Refining near-native protein-protein docking decoys by local resampling and energy minimization. Proteins. 76: 309-16. PMID 19156819 DOI: 10.1002/Prot.22343 |
0.447 |
|
| 2009 |
Liang S, Li L, Hsu WL, Pilcher MN, Uversky V, Zhou Y, Dunker AK, Meroueh SO. Exploring the molecular design of protein interaction sites with molecular dynamics simulations and free energy calculations. Biochemistry. 48: 399-414. PMID 19113835 DOI: 10.1021/Bi8017043 |
0.409 |
|
| 2009 |
Liang S, Meroueh SO, Wang G, Qiu C, Zhou Y. Consensus scoring for enriching near-native structures from protein-protein docking decoys. Proteins. 75: 397-403. PMID 18831053 DOI: 10.1002/Prot.22252 |
0.439 |
|
| 2009 |
Liang S, Grishin NV. Side-chain modeling with an optimized scoring function. Protein Science. 11: 322-331. PMID 11790842 DOI: 10.1110/Ps.24902 |
0.474 |
|
| 2007 |
Liang S, Liu S, Zhang C, Zhou Y. A simple reference state makes a significant improvement in near-native selections from structurally refined docking decoys. Proteins. 69: 244-53. PMID 17623864 DOI: 10.1002/Prot.21498 |
0.44 |
|
| 2007 |
Liu S, Zhang C, Liang S, Zhou Y. Fold recognition by concurrent use of solvent accessibility and residue depth. Proteins. 68: 636-45. PMID 17510969 DOI: 10.1002/Prot.21459 |
0.362 |
|
| 2006 |
Liang S, Zhang C, Liu S, Zhou Y. Protein binding site prediction using an empirical scoring function. Nucleic Acids Research. 34: 3698-707. PMID 16893954 DOI: 10.1093/Nar/Gkl454 |
0.47 |
|
| 2005 |
Liang S, Zhang J, Zhang S, Guo H. Prediction of the interaction site on the surface of an isolated protein structure by analysis of side chain energy scores. Proteins. 57: 548-57. PMID 15382230 DOI: 10.1002/prot.20238 |
0.321 |
|
| 2003 |
Liang S, Grishin NV. Effective scoring function for protein sequence design. Proteins. 54: 271-281. PMID 14696189 DOI: 10.1002/Prot.10560 |
0.441 |
|
| 2003 |
Liu Z, Jiang L, Gao Y, Liang S, Chen H, Han Y, Lai L. Beyond the rotamer library: genetic algorithm combined with the disturbing mutation process for upbuilding protein side-chains. Proteins. 50: 49-62. PMID 12471599 DOI: 10.1002/Prot.10253 |
0.347 |
|
| Show low-probability matches. |