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

Autor Vreven, Thom, Hwang, Howook, Weng, Zhiping
Vydáno 2011

Exploring Angular Distance in Protein-Protein Docking Algorithms

Autor Vreven, Thom, Hwang, Howook, Weng, Zhiping
Vydáno 2013

Binding Interface Prediction by Combining Protein-protein Docking Results

Autor Hwang, Howook, Vreven, Thom, Weng, Zhiping
Vydáno 2013

A hybrid method for protein–protein interface prediction

Autor Hwang, Howook, Petrey, Donald, Honig, Barry
Vydáno v Protein Sci (2015)

Protein-Protein Docking Benchmark Version 4.0

Autor Hwang, Howook, Vreven, Thom, Janin, Joël, Weng, Zhiping
Vydáno 2010

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

Autor Hwang, Howook, Dey, Fabian, Petrey, Donald, Honig, Barry
Vydáno v Proc Natl Acad Sci U S A (2017)

Prediction of protein–protein binding free energies

Autor Vreven, Thom, Hwang, Howook, Pierce, Brian G, Weng, Zhiping
Vydáno 2012

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

Autor Vreven, Thom, Hwang, Howook, Pierce, Brian G., Weng, Zhiping
Vydáno 2014

Performance of ZDOCK in CAPRI rounds 20–26

Autor Vreven, Thom, Pierce, Brian G., Hwang, Howook, Weng, Zhiping
Vydáno 2013

Protein-Protein Docking Benchmark Version 3.0

Autor Hwang, Howook, Pierce, Brian, Mintseris, Julian, Janin, Joël, Weng, Zhiping
Vydáno 2008

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

Autor Hwang, Howook, Vreven, Thom, Whitfield, Troy W., Wiehe, Kevin, Weng, Zhiping
Vydáno 2011

Performance of ZDOCK and ZRANK in CAPRI Rounds 13 - 19

Autor Hwang, Howook, Vreven, Thom, Pierce, Brian, Hung, Jui-Hung, Weng, Zhiping
Vydáno 2010

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

Autor Pierce, Brian G., Wiehe, Kevin, Hwang, Howook, Kim, Bong-Hyun, Vreven, Thom, Weng, Zhiping
Vydáno 2014

Template-based Prediction of Protein Function

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

A structure-based benchmark for protein–protein binding affinity

Autor Kastritis, Panagiotis L, Moal, Iain H, Hwang, Howook, Weng, Zhiping, Bates, Paul A, Bonvin, Alexandre M J J, Janin, Joël
Vydáno 2011

Blind Prediction of Interfacial Water Positions in CAPRI

Autor 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.
Vydáno v Proteins (2013)

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

Autor 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
Vydáno 2013

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

Autor 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
Vydáno 2011