Integrating atom-based and residue-based scoring functions for protein–protein docking

Bằng Vreven, Thom, Hwang, Howook, Weng, Zhiping
Được phát hành 2011

Exploring Angular Distance in Protein-Protein Docking Algorithms

Bằng Vreven, Thom, Hwang, Howook, Weng, Zhiping
Được phát hành 2013

Binding Interface Prediction by Combining Protein-protein Docking Results

Bằng Hwang, Howook, Vreven, Thom, Weng, Zhiping
Được phát hành 2013

A hybrid method for protein–protein interface prediction

Bằng Hwang, Howook, Petrey, Donald, Honig, Barry
Xuất bản năm Protein Sci (2015)

Protein-Protein Docking Benchmark Version 4.0

Bằng Hwang, Howook, Vreven, Thom, Janin, Joël, Weng, Zhiping
Được phát hành 2010

Structure-based prediction of ligand–protein interactions on a genome-wide scale

Bằng Hwang, Howook, Dey, Fabian, Petrey, Donald, Honig, Barry
Xuất bản năm Proc Natl Acad Sci U S A (2017)

Prediction of protein–protein binding free energies

Bằng Vreven, Thom, Hwang, Howook, Pierce, Brian G, Weng, Zhiping
Được phát hành 2012

Evaluating template-based and template-free protein–protein complex structure prediction

Bằng Vreven, Thom, Hwang, Howook, Pierce, Brian G., Weng, Zhiping
Được phát hành 2014

Performance of ZDOCK in CAPRI rounds 20–26

Bằng Vreven, Thom, Pierce, Brian G., Hwang, Howook, Weng, Zhiping
Được phát hành 2013

Protein-Protein Docking Benchmark Version 3.0

Bằng Hwang, Howook, Pierce, Brian, Mintseris, Julian, Janin, Joël, Weng, Zhiping
Được phát hành 2008

A Machine Learning Approach for the Prediction of Protein Surface Loop Flexibility

Bằng Hwang, Howook, Vreven, Thom, Whitfield, Troy W., Wiehe, Kevin, Weng, Zhiping
Được phát hành 2011

Performance of ZDOCK and ZRANK in CAPRI Rounds 13 - 19

Bằng Hwang, Howook, Vreven, Thom, Pierce, Brian, Hung, Jui-Hung, Weng, Zhiping
Được phát hành 2010

ZDOCK server: interactive docking prediction of protein–protein complexes and symmetric multimers

Bằng Pierce, Brian G., Wiehe, Kevin, Hwang, Howook, Kim, Bong-Hyun, Vreven, Thom, Weng, Zhiping
Được phát hành 2014

Template-based Prediction of Protein Function

Bằng Petrey, Donald, Chen, T. Scott, Deng, Lei, Garzon, Jose Ignacio, Hwang, Howook, Lasso, Gorka, Lee, Hunjoong, Silkov, Antonina, Honig, Barry
Xuất bản năm Curr Opin Struct Biol (2015)

A structure-based benchmark for protein–protein binding affinity

Bằng Kastritis, Panagiotis L, Moal, Iain H, Hwang, Howook, Weng, Zhiping, Bates, Paul A, Bonvin, Alexandre M J J, Janin, Joël
Được phát hành 2011

Blind Prediction of Interfacial Water Positions in CAPRI

Bằng Lensink, Marc F., Moal, Iain H., Bates, Paul A., Kastritis, Panagiotis L., Melquiond, Adrien S.J., Karaca, Ezgi, Schmitz, Christophe, van Dijk, Marc, Bonvin, Alexandre M.J.J., Eisenstein, Miriam, Jiménez-García, Brian, Grosdidier, Solène, Solernou, Albert, Pérez-Cano, Laura, Pallara, Chiara, Fernández-Recio, Juan, Xu, Jianqing, Muthu, Pravin, Kilambi, Krishna Praneeth, Gray, Jeffrey J., Grudinin, Sergei, Derevyanko, Georgy, Mitchell, Julie C., Wieting, John, Kanamori, Eiji, Tsuchiya, Yuko, Murakami, Yoichi, Sarmiento, Joy, Standley, Daron M., Shirota, Matsuyuki, Kinoshita, Kengo, Nakamura, Haruki, Chavent, Matthieu, Ritchie, David W., Park, Hahnbeom, Ko, Junsu, Lee, Hasup, Seok, Chaok, Shen, Yang, Kozakov, Dima, Vajda, Sandor, Kundrotas, Petras J., Vakser, Ilya A., Pierce, Brian G., Hwang, Howook, Vreven, Thom, Weng, Zhiping, Buch, Idit, Farkash, Efrat, Wolfson, Haim J., Zacharias, Martin, Qin, Sanbo, Zhou, Huan-Xiang, Huang, Shen-You, Zou, Xiaoqin, Wojdyla, Justyna A., Kleanthous, Colin, Wodak, Shoshana J.
Xuất bản năm Proteins (2013)

Community-wide Evaluation of Methods for Predicting the Effect of Mutations on Protein-Protein Interactions

Bằng Moretti, Rocco, Fleishman, Sarel J., Agius, Rudi, Torchala, Mieczyslaw, Bates, Paul A., Kastritis, Panagiotis L., Rodrigues, João P. G. L. M., Trellet, Mikaël, Bonvin, Alexandre M. J. J., Cui, Meng, Rooman, Marianne, Gillis, Dimitri, Dehouck, Yves, Moal, Iain, Romero-Durana, Miguel, Perez-Cano, Laura, Pallara, Chiara, Jimenez, Brian, Fernandez-Recio, Juan, Flores, Samuel, Pacella, Michael, Kilambi, Krishna Praneeth, Gray, Jeffrey J., Popov, Petr, Grudinin, Sergei, Esquivel-Rodríguez, Juan, Kihara, Daisuke, Zhao, Nan, Korkin, Dmitry, Zhu, Xiaolei, Demerdash, Omar N. A., Mitchell, Julie C., Kanamori, Eiji, Tsuchiya, Yuko, Nakamura, Haruki, Lee, Hasup, Park, Hahnbeom, Seok, Chaok, Sarmiento, Jamica, Liang, Shide, Teraguchi, Shusuke, Standley, Daron M., Shimoyama, Hiromitsu, Terashi, Genki, Takeda-Shitaka, Mayuko, Iwadate, Mitsuo, Umeyama, Hideaki, Beglov, Dmitri, Hall, David R., Kozakov, Dima, Vajda, Sandor, Pierce, Brian G., Hwang, Howook, Vreven, Thom, Weng, Zhiping, Huang, Yangyu, Li, Haotian, Yang, Xiufeng, Ji, Xiaofeng, Liu, Shiyong, Xiao, Yi, Zacharias, Martin, Qin, Sanbo, Zhou, Huan-Xiang, Huang, Sheng-You, Zou, Xiaoqin, Velankar, Sameer, Janin, Joël, Wodak, Shoshana J., Baker, David
Được phát hành 2013

Community-wide assessment of protein-interface modeling suggests improvements to design methodology

Bằng Fleishman, Sarel J, Whitehead, Timothy A, Strauch, Eva-Maria, Corn, Jacob E, Qin, Sanbo, Zhou, Huan-Xiang, Mitchell, Julie C., Demerdash, Omar N.A, Takeda-Shitaka, Mayuko, Terashi, Genki, Moal, Iain H., Li, Xiaofan, Bates, Paul A., Zacharias, Martin, Park, Hahnbeom, Ko, Jun-su, Lee, Hasup, Seok, Chaok, Bourquard, Thomas, Bernauer, Julie, Poupon, Anne, Azé, Jérôme, Soner, Seren, Ovali, Şefik Kerem, Ozbek, Pemra, Ben Tal, Nir, Haliloglu, Türkan, Hwang, Howook, Vreven, Thom, Pierce, Brian G., Weng, Zhiping, Pérez-Cano, Laura, Pons, Carles, Fernández-Recio, Juan, Jiang, Fan, Yang, Feng, Gong, Xinqi, Cao, Libin, Xu, Xianjin, Liu, Bin, Wang, Panwen, Li, Chunhua, Wang, Cunxin, Robert, Charles H., Guharoy, Mainak, Liu, Shiyong, Huang, Yangyu, Li, Lin, Guo, Dachuan, Chen, Ying, Xiao, Yi, London, Nir, Itzhaki, Zohar, Schueler-Furman, Ora, Inbar, Yuval, Patapov, Vladimir, Cohen, Mati, Schreiber, Gideon, Tsuchiya, Yuko, Kanamori, Eiji, Standley, Daron M., Nakamura, Haruki, Kinoshita, Kengo, Driggers, Camden M., Hall, Robert G., Morgan, Jessica L., Hsu, Victor L., Zhan, Jian, Yang, Yuedong, Zhou, Yaoqi, Kastritis, Panagiotis L., Bonvin, Alexandre M.J.J., Zhang, Weiyi, Camacho, Carlos J., Kilambi, Krishna P., Sircar, Aroop, Gray, Jeffrey J., Ohue, Masahito, Uchikoga, Nobuyuki, Matsuzaki, Yuri, Ishida, Takashi, Akiyama, Yutaka, Khashan, Raed, Bush, Stephen, Fouches, Denis, Tropsha, Alexander, Esquivel-Rodríguez, Juan, Kihara, Daisuke, Stranges, P Benjamin, Jacak, Ron, Kuhlman, Brian, Huang, Sheng-You, Zou, Xiaoqin, Wodak, Shoshana J, Janin, Joel, Baker, David
Được phát hành 2011