Xusi Han
Purdue University
11 Papers
14 Citations
Xusi Han is an academic researcher from Purdue University. The author has contributed to research in topics: Computer science & Protein Data Bank. The author has an hindex of 6, co-authored 11 publications.
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Papers
Prediction of homoprotein and heteroprotein complexes by protein docking and template-based modeling: A CASP-CAPRI experiment.
Marc F. Lensink,Sameer Velankar,Andriy Kryshtafovych,Shen You Huang,Dina Schneidman-Duhovny,Andrej Sali,Joan Segura,Narcis Fernandez-Fuentes,Shruthi Viswanath,Ron Elber,Sergei Grudinin,Petr Popov,Emilie Neveu,Hasup Lee,Minkyung Baek,Sangwoo Park,Lim Heo,Gyu Rie Lee,Chaok Seok,Sanbo Qin,Huan-Xiang Zhou,David W. Ritchie,Bernard Maigret,Marie-Dominique Devignes,Anisah W. Ghoorah,Mieczyslaw Torchala,Raphael A. G. Chaleil,Paul A. Bates,Efrat Ben-Zeev,Miriam Eisenstein,Surendra S. Negi,Zhiping Weng,Thom Vreven,Brian G. Pierce,Tyler M. Borrman,Jinchao Yu,Françoise Ochsenbein,Raphael Guerois,Anna Vangone,João P. G. L. M. Rodrigues,Gydo C. P. van Zundert,Mehdi Nellen,Li C. Xue,Ezgi Karaca,Adrien S. J. Melquiond,Koen M. Visscher,Panagiotis L. Kastritis,Alexandre M. J. J. Bonvin,Xianjin Xu,Liming Qiu,Chengfei Yan,Jilong Li,Zhiwei Ma,Jianlin Cheng,Xiaoqin Zou,Yang Shen,Lenna X. Peterson,Hyung Rae Kim,Amit Roy,Amit Roy,Xusi Han,Juan Esquivel-Rodríguez,Daisuke Kihara,Xiaofeng Yu,Neil J. Bruce,Jonathan C. Fuller,Rebecca C. Wade,Ivan Anishchenko,Petras J. Kundrotas,Ilya A. Vakser,Kenichiro Imai,Kazunori D. Yamada,Toshiyuki Oda,Tsukasa Nakamura,Kentaro Tomii,Chiara Pallara,Miguel Romero-Durana,Brian Jiménez-García,Iain H. Moal,Juan Fernández-Recio,Jong Young Joung,Jong Yun Kim,Keehyoung Joo,Jooyoung Lee,Jooyoung Lee,Dima Kozakov,Sandor Vajda,Scott E. Mottarella,David R. Hall,Dmitri Beglov,Artem B. Mamonov,Bing Xia,Tanggis Bohnuud,Carlos A. Del Carpio,Carlos A. Del Carpio,Eichiro Ichiishi,Nicholas A. Marze,Daisuke Kuroda,Shourya S. Roy Burman,Jeffrey J. Gray,Edrisse Chermak,Luigi Cavallo,Romina Oliva,Andrey Tovchigrechko,Shoshana J. Wodak +104 more
TL;DR: Results show that the prediction of homodimer assemblies by homology modeling techniques and docking calculations is quite successful for targets featuring large enough subunit interfaces to represent stable associations, and that docking procedures tend to perform better than standard homology modeled techniques.
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Classification in cryo-electron tomograms
Ilja Gubins,Gijs van der Schot,Remco C. Veltkamp,Friedrich Förster,Xuefeng Du,Xiangrui Zeng,Zhenxi Zhu,Lufan Chang,Min Xu,Emmanuel Moebel,Antonio Martinez-Sanchez,Charles Kervrann,Tuan Manh Lai,Xusi Han,Genki Terashi,Daisuke Kihara,Benjamin A. Himes,Xiaohua Wan,Jingrong Zhang,Shan Gao,Yu Hao,Zhilong Lv,Zhidong Yang,Zijun Ding,Xuefeng Cui,Fa Zhang +25 more
- 05 May 2019
TL;DR: The results show that learning-based approaches is the current trend in cryo-ET classification research and specifically end-to-end 3D learning- based approaches achieve the best performance.
28
Navigating 3D electron microscopy maps with EM-SURFER
TL;DR: The unique capability of EM-SURFER to detect 3D shape similarity of low-resolution EM maps should prove invaluable in structural biology and retrieves structurally relevant matches for query EM maps from EMDB within seconds is developed.
Human and Server Docking Prediction for CAPRI Round 30‐35 Using LZerD with Combined Scoring Functions
Lenna X. Peterson,Hyungrae Kim,Juan Esquivel-Rodríguez,A. Roy,A. Roy,Xusi Han,Woong-Hee Shin,Jian Zhang,Genki Terashi,Matthew R. Lee,Daisuke Kihara +10 more
TL;DR: It was found that the quality of a pool of docking models generated by LZerD, that is whether or not the pool includes near‐native models, can be predicted by the correlation of multiple scores.
20
VESPER: global and local cryo-EM map alignment using local density vectors
TL;DR: In this article, the similarity of underlying molecular structures embedded in density maps by taking local gradient directions into consideration was captured by using a local gradient-based alignment method. But the alignment of density maps is an essential step for structure modeling, comparison of maps, and for database search.