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ORCIDYang Zhang 0040
Person information
- affiliation: University of Michigan, Department of Computational Medicine and Bioinformatics, Ann Arbor, MI, USA
Other persons with the same name
- Yang Zhang — disambiguation page
- Yang Zhang 0001 — MIT-IBM Watson AI Lab, Cambridge, MA, USA (and 1 more)
- Yang Zhang 0002
![[0000-0002-7260-5098]](https://dblp.uni-trier.de./img/orcid-mark.12x12.png "0000-0002-7260-5098")
— Chinese Academy of Sciences, Institute of Computing Technology, Beijing, China (and 2 more) - Yang Zhang 0003 — University of Bristol, UK
- Yang Zhang 0004 — University of Twente, Enschede, Netherlands
- Yang Zhang 0005 — Georgia Institute of Technology, Atlanta, GA, USA
- Yang Zhang 0006 — University of Minnesota, Minneapolis, USA
- Yang Zhang 0007 — University of Sheffield, UK
- Yang Zhang 0008 — University of the Chinese Academy of Sciences, Beijing, China (and 1 more)
- Yang Zhang 0009 — University of Science and Technology, Research Center for Bioengineering and Sensing Technology, Beijing, China
- Yang Zhang 0010 — Northwest A&F University, Yangling, China
- Yang Zhang 0011 — Dalian University of Technology, Key Laboratory for Precision and Non-Traditional Machining Technology of the Ministry of Education, China
- Yang Zhang 0012 — Shenzhen University, School of Computer Science and Software Engineering, Shenzhen, China (and 1 more)
- Yang Zhang 0013 — Xidian University, State Key Laboratory of Integrated Service Networks, Xi'an, China (and 1 more)
- Yang Zhang 0014 — University of Southern California, Ming Hsieh Department of Electrical Engineering, Los Angeles, CA, USA
- Yang Zhang 0015 — Beijing University of Posts and Telecommunications, State Key Laboratory of Networking and Switching Technology, China
- Yang Zhang 0016 — CISPA, Helmholtz Center for Information Security, Saarbrücken, Germany (and 1 more)
- Yang Zhang 0017 — ForeScout Technologies Inc. (and 2 more)
- Yang Zhang 0018 — North Carolina State University, Department of Marine, Earth, and Atmospheric Sciences, Raleigh, NC, USA
- Yang Zhang 0019 — Nankai University, Institute of Machine Intelligence, Tianjin, China
- Yang Zhang 0020 — ETH Zürich, Switzerland (and 1 more)
- Yang Zhang 0021 — Chinese Academy of Sciences, Institute of Software, Beijing, China
- Yang Zhang 0022 — Fourth Military Medical University, Department of Biomedical Engineering, Xi'an, China
- Yang Zhang 0023 — North University of China, Key Laboratory of Instrumentation Science & Dynamic Measurement, Taiyuan, China
- Yang Zhang 0024 — State Key Laboratory of Information Security, Beijing, China
- Yang Zhang 0025 — Nanjing University of Aeronautics and Astronautics, College of Computer Science and Technology, Nanjing, Jiangsu, China (and 2 more)
- Yang Zhang 0026 — National University of Defense Technology, National Laboratory for Parallel and Distributed Processing, Changsha, China
- Yang Zhang 0027 — Mechanical Engineering College, Information Engineering Department, Shijiazhuang, China
- Yang Zhang 0028 — Chinese Academy of Science, Shenyang Institute of Automation, State Key Laboratory of Robotics, China
- Yang Zhang 0029 — Beijing University of Technology, College of Mechanical Engineering, Beijing Key Laboratory of Nonlinear Vibrations and Strength of Mechanical Structures, China
- Yang Zhang 0030 — University of Louvain, Department of Electrical Engineering, Micro-Electronics and Sensors, Belgium
- Yang Zhang 0031 — University of Illinois Urbana-Champaign, School of Information Sciences, IL, USA (and 1 more)
- Yang Zhang 0032 — Beijing University of Chemical Technology, College of Information Science and Technology, China (and 1 more)
- Yang Zhang 0033 — Hong Kong University of Science and Technology, Department of Mechanical and Aerospace Engineering, Hong Kong
- Yang Zhang 0034 — Chinese University of Hong Kong, Department of Electronic Engineering, Hong Kong
- Yang Zhang 0035 — University of Central Florida, Center for Research in Computer Vision, Orlando, FL, USA
- Yang Zhang 0036 — National University of Defense Technology, College of Electronic Science, Changsha, China (and 1 more)
- Yang Zhang 0037 — Hebei University of Science and Technology, School of Information Science and Technology, Shijiazhuang, China (and 1 more)
- Yang Zhang 0038 — Jilin University, College of Computer Science and Technology, China
- Yang Zhang 0039 — University College London, Department of Civil, Environmental and Geomatic Engineering, UK
- Yang Zhang 0041 — University of California, School of Engineering, Los Angeles, CA, USA (and 1 more)
- Yang Zhang 0042 — University of Illinois System, Department of Bioengineering, Urbana, IL, USA
- Yang Zhang 0043 — Technical University of Denmark, Department of Mechanical Engineering, Lyngby, Denmark
- Yang Zhang 0044 — University of Missouri, Department of Electrical Engineering and Computer Science, Columbia, MO, USA
- Yang Zhang 0045 — University of Manitoba, Department of Mathematics, Winnipeg, MB, Canada
- Yang Zhang 0046 — Xi'an Jiaotong University, Department of Fluid Machinery and Engineering, China
- Yang Zhang 0047 — Chang'an University, School of Information Engineering, Xi'an, China
- Yang Zhang 0048 — Beijing Jiaotong University, School of Electronic and Information Engineering, Beijing, China
- Yang Zhang 0049 — Harbin Engineering University, College of Underwater Acoustic Engineering, China
- Yang Zhang 0050 — Shanghai Polytechnic University, College of Computer and Information Engineering, China
- Yang Zhang 0051 — Huazhong University of Science and Technology, School of Computer Science and Technology, Wuhan National Laboratory for Optoelectronics, Engineering Research Center of Data Storage Systems and Technology, Wuhan, China
- Yang Zhang 0052 — Tsinghua University, Center for Speech and Language Technologies, Beijing, China
- Yang Zhang 0053 — Nanjing University, National Key Laboratory for Novel Software Technology, China
- Yang Zhang 0054 — Fujian Agriculture and Forestry University, College of Resources and Environment, Fuzhou, China (and 1 more)
- Yang Zhang 0055 — National University of Singapore, Global Asia Institute, Singapore
- Yang Zhang 0056 — Sinotech Genomics Inc., Department of Research and Development, Shanghai, China
- Yang Zhang 0057 — Harbin Institute of Technology, College of Science, Shenzhen, China (and 1 more)
- Yang Zhang 0058 — Kyoto University, Graduate School of Informatics, Japan
- Yang Zhang 0059 — Ocean University of China, Engineering College, Qingdao, China
- Yang Zhang 0060 — Heilongjiang University, School of Electronic and Engineering, Harbin, China (and 1 more)
- Yang Zhang 0061 — Fujian University of Technology, School of Transportation, Fuzhou, China (and 1 more)
- Yang Zhang 0062 — Communication University of China, School of Information and Communication Engineering, Beijing, China
- Yang Zhang 0063 — Hunan University of Technology, College of Electrical and Information Engineering, Zhuzhou, China
- Yang Zhang 0064 — Xidian University, School of Artificial Intelligence / International Research Center for Intelligent Perception and Computation, Xi'an, China
- Y Z (aka: Yang Zhang 0065) — University of Michigan, Department of Nuclear Engineering and Radiological Sciences, Ann Arbor, MI, USA (and 3 more)
- Yang Zhang 0067 — Nanjing University of Science and Technology, School of Computer Science and Engineering, China (and 2 more)
- Yang Zhang 0068 — Hong Kong Polytechnic University, Department of Building Service Engineering, Hong Kong
- Yang Zhang 0069 — Polytechnic University of Turin, Department of Energy, Italy
- Yang Zhang 0070 — Peking University, Shenzhen Graduate School, Communication and Information Security Laboratory, China
- Yang Zhang 0071 — Chinese Academy of Sciences, Changchun Institute of Optics, Fine Mechanics and Physics, Department of Space Robot Engineering, China
- Yang Zhang 0072 — University of Science and Technology of China, Hefei, China
- Yang Zhang 0073 — City University of Hong Kong, City University of Hong Kong, Hong Kong
- Yang Zhang 0074 — University of Minnesota-Twin Cities, Department of Computer Science, Minneapolis, MN, USA
- Yang Zhang 0075 — Shandong University, Qilu Hospital, Department of Radiology, Jinan, China
- Yang Zhang 0076 — Beijing Forestry University, Department of Business Management, China
- Yang Zhang 0077 — Sun Yat-Sen University, School of Information Management, Guangzhou, China
- Yang Zhang 0078 — Tianjin University of Commerce, School of Management, China
- Yang Zhang 0079 — DeepWisdom, Ltd, Xiamen, China
- Yang Zhang 0080 — Johns Hopkins University, Department of Biomedical Engineering, Baltimore, MD, USA (and 1 more)
- Yang Zhang 0081 — Interuniversity Microelectronics Center (Imec), Leuven, Belgium
- Yang Zhang 0082 — Shanghai Jiao Tong University, School of Mechanical Engineering, State Key Laboratory of Mechanical System and Vibration, China
- Yang Zhang 0083 — Harbin Institute of Technology, School of Electronics and Information Engineering, China
- Yang Zhang 0084 — Jilin University, College of Instrumentation and Electrical Engineering, / MOE Key Laboratory of Geophysical Exploration Equipment, Changchun, China (and 1 more)
- Yang Zhang 0085 — Chinese Academy of Meteorological Sciences, State Key Laboratory of Severe Weather, Beijing, China
- Yang Zhang 0086 — University of Electronic Science and Technology of China, School of Information and Communication Engineering, Chengdu, China
- Yang Zhang 0087 — Henan Institute of Technology, Department of Computer Science and Technology, Xinxiang, China
- Yang Zhang 0088 — Bytedance AI Lab, China
- Yang Zhang 0089 — NVIDIA, Santa Clara, CA, USA
- Yang Zhang 0090 — Capital University of Economics and Business, Beijing, China
- Yang Zhang 0091 — Shandong University of Science and Technology, College of Computer Science and Engineering, Qingdao, China
- Yang Zhang 0092 — Jilin University, College of Instrumentation and Electrical Engineering, / MOE Key Laboratory of Geophysical Exploration Equipment, Changchun, China
- Yang Zhang 0093 — Kanagawa University, Department of Computer Science, Yokohama, Japan (and 1 more)
- Yang Zhang 0094 — Renmin University of China, Gaoling School of Artificial Intelligence, Beijing, China
- Yang Zhang 0095 — University of North Texas, Denton, USA (and 1 more)
- Yang Zhang 0096 — Purdue University, West Lafayette, IN, USA
- Yang Zhang 0097 — Hong Kong Polytechnic University, China (and 1 more)
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Journal Articles
- 2024
[j71]Zi Liu, Chengxin Zhang, Qidi Zhang, Yang Zhang, Dong-Jun Yu:
TM-search: An Efficient and Effective Tool for Protein Structure Database Search. J. Chem. Inf. Model. 64(3): 1043-1049 (2024)- 2022
- [j70]Biao Zhang, Dong Liu, Yang Zhang, Hong-Bin Shen, Gui-Jun Zhang:
Accurate flexible refinement for atomic-level protein structure using cryo-EM density maps and deep learning. Briefings Bioinform. 23(2) (2022) - [j69]Elijah A. MacCarthy, Chengxin Zhang, Yang Zhang, Dukka B. KC:
GPU-I-TASSER: a GPU accelerated I-TASSER protein structure prediction tool. Bioinform. 38(6): 1754-1755 (2022) - [j68]Yi-Heng Zhu, Chengxin Zhang, Yan Liu, Gilbert S. Omenn, Peter L. Freddolino, Dong-Jun Yu, Yang Zhang:
TripletGO: Integrating Transcript Expression Profiles with Protein Homology Inferences for Gene Function Prediction. Genom. Proteom. Bioinform. 20(5): 1013-1027 (2022) - [j67]Xiaogen Zhou, Chunxiang Peng, Wei Zheng, Yang Li, Guijun Zhang, Yang Zhang:
DEMO2: Assemble multi-domain protein structures by coupling analogous template alignments with deep-learning inter-domain restraint prediction. Nucleic Acids Res. 50(W1): 235-245 (2022) - [j66]Wei Zheng, Qiqige Wuyun, Xiaogen Zhou, Yang Li, Peter L. Freddolino, Yang Zhang:
LOMETS3: integrating deep learning and profile alignment for advanced protein template recognition and function annotation. Nucleic Acids Res. 50(W1): 454-464 (2022) - [j65]Xiaogen Zhou, Yang Li, Chengxin Zhang, Wei Zheng, Guijun Zhang, Yang Zhang:
Progressive assembly of multi-domain protein structures from cryo-EM density maps. Nat. Comput. Sci. 2(4): 265-275 (2022) - [j64]Robin Pearce, Yang Li, Gilbert S. Omenn, Yang Zhang:
Fast and accurate Ab Initio Protein structure prediction using deep learning potentials. PLoS Comput. Biol. 18(9): 1010539 (2022) - [j63]Yi-Heng Zhu, Chengxin Zhang, Dong-Jun Yu, Yang Zhang:
Integrating unsupervised language model with triplet neural networks for protein gene ontology prediction. PLoS Comput. Biol. 18(12): 1010793 (2022) - 2021
- [j62]Yi-Heng Zhu, Jun Hu, Fang Ge, Fuyi Li, Jiangning Song, Yang Zhang, Dong-Jun Yu:
Accurate multistage prediction of protein crystallization propensity using deep-cascade forest with sequence-based features. Briefings Bioinform. 22(3) (2021) - [j61]Kai-Long Zhao, Jun Liu, Xiao-Gen Zhou, Jianzhong Su, Yang Zhang, Gui-Jun Zhang:
MMpred: a distance-assisted multimodal conformation sampling for de novo protein structure prediction. Bioinform. 37(23): 4350-4356 (2021) - [j60]Yang Li, Chengxin Zhang, Eric W. Bell, Wei Zheng, Xiaogen Zhou, Dong-Jun Yu, Yang Zhang:
Deducing high-accuracy protein contact-maps from a triplet of coevolutionary matrices through deep residual convolutional networks. PLoS Comput. Biol. 17(3) (2021) - [j59]Jaie C. Woodard, Wei Zheng, Yang Zhang:
Protein structural features predict responsiveness to pharmacological chaperone treatment for three lysosomal storage disorders. PLoS Comput. Biol. 17(9) (2021) - 2020
- [j58]Di Wang, Ling Geng, Yu-Jun Zhao, Yang Yang, Yan Huang, Yang Zhang, Hong-Bin Shen:
Artificial intelligence-based multi-objective optimization protocol for protein structure refinement. Bioinform. 36(2): 437-448 (2020) - [j57]Sweta Vangaveti, Thom Vreven, Yang Zhang, Zhiping Weng:
Integrating ab initio and template-based algorithms for protein-protein complex structure prediction. Bioinform. 36(3): 751-757 (2020) - [j56]Xiaoqiang Huang, Robin Pearce, Yang Zhang:
EvoEF2: accurate and fast energy function for computational protein design. Bioinform. 36(4): 1135-1142 (2020) - [j55]Chengxin Zhang, Wei Zheng, S. M. Mortuza, Yang Li, Yang Zhang:
DeepMSA: constructing deep multiple sequence alignment to improve contact prediction and fold-recognition for distant-homology proteins. Bioinform. 36(7): 2105-2112 (2020) - [j54]Xiaoqiang Huang, Wei Zheng, Robin Pearce, Yang Zhang:
SSIPe: accurately estimating protein-protein binding affinity change upon mutations using evolutionary profiles in combination with an optimized physical energy function. Bioinform. 36(8): 2429-2437 (2020) - [j53]Jun Liu, Xiao-Gen Zhou, Yang Zhang, Gui-Jun Zhang:
CGLFold: a contact-assisted de novo protein structure prediction using global exploration and loop perturbation sampling algorithm. Bioinform. 36(8): 2443-2450 (2020) - [j52]Wei Zheng, Xiaogen Zhou, Qiqige Wuyun, Robin Pearce, Yang Li, Yang Zhang:
FUpred: detecting protein domains through deep-learning-based contact map prediction. Bioinform. 36(12): 3749-3757 (2020) - [j51]Xiaoqiang Huang, Robin Pearce, Yang Zhang:
FASPR: an open-source tool for fast and accurate protein side-chain packing. Bioinform. 36(12): 3758-3765 (2020) - [j50]Xiaoqiong Wei, Chengxin Zhang, Peter L. Freddolino, Yang Zhang, Zhiyong Lu:
Detecting Gene Ontology misannotations using taxon-specific rate ratio comparisons. Bioinform. 36(16): 4383-4388 (2020) - [j49]Wenyi Zhang, Eric W. Bell, Minghao Yin, Yang Zhang:
EDock: blind protein-ligand docking by replica-exchange monte carlo simulation. J. Cheminformatics 12(1): 37 (2020) - [j48]Xiaoqiang Huang, Robin Pearce, Yang Zhang:
Toward the Accuracy and Speed of Protein Side-Chain Packing: A Systematic Study on Rotamer Libraries. J. Chem. Inf. Model. 60(1): 410-420 (2020) - [j47]Xiaogen Zhou, Chunxiang Peng, Jun Liu, Yang Zhang, Gui-Jun Zhang:
Underestimation-Assisted Global-Local Cooperative Differential Evolution and the Application to Protein Structure Prediction. IEEE Trans. Evol. Comput. 24(3): 536-550 (2020) - 2019
- [j46]Jiansheng Wu, Ben Liu, Wallace K. B. Chan, Weijian Wu, Tao Pang, Haifeng Hu, Shancheng Yan, Xiaoyan Ke, Yang Zhang:
Precise modelling and interpretation of bioactivities of ligands targeting G protein-coupled receptors. Bioinform. 35(14): i324-i332 (2019) - [j45]Sha Gong, Chengxin Zhang, Yang Zhang:
RNA-align: quick and accurate alignment of RNA 3D structures based on size-independent TM-scoreRNA. Bioinform. 35(21): 4459-4461 (2019) - [j44]Yang Li, Jun Hu, Chengxin Zhang, Dong-Jun Yu, Yang Zhang:
ResPRE: high-accuracy protein contact prediction by coupling precision matrix with deep residual neural networks. Bioinform. 35(22): 4647-4655 (2019) - [j43]Wei Zheng, Chengxin Zhang, Eric W. Bell, Yang Zhang:
I-TASSER gateway: A protein structure and function prediction server powered by XSEDE. Future Gener. Comput. Syst. 99: 73-85 (2019) - [j42]Eric W. Bell, Yang Zhang:
DockRMSD: an open-source tool for atom mapping and RMSD calculation of symmetric molecules through graph isomorphism. J. Cheminformatics 11(1): 40:1-40:9 (2019) - [j41]Wei Zheng, Chengxin Zhang, Qiqige Wuyun, Robin Pearce, Yang Li, Yang Zhang:
LOMETS2: improved meta-threading server for fold-recognition and structure-based function annotation for distant-homology proteins. Nucleic Acids Res. 47(Webserver-Issue): W429-W436 (2019) - [j40]Wei Zheng, Qiqige Wuyun, Yang Li, S. M. Mortuza, Chengxin Zhang, Robin Pearce, Jishou Ruan, Yang Zhang:
Detecting distant-homology protein structures by aligning deep neural-network based contact maps. PLoS Comput. Biol. 15(10) (2019) - 2018
- [j39]Justin S. Diamond, Yang Zhang:
THE-DB: a threading model database for comparative protein structure analysis of the E. coli K12 and human proteomes. Database J. Biol. Databases Curation 2018: bay090 (2018) - [j38]Runze Dong, Zhenling Peng, Yang Zhang, Jianyi Yang:
mTM-align: an algorithm for fast and accurate multiple protein structure alignment. Bioinform. 34(10): 1719-1725 (2018) - [j37]Jun Hu, Zi Liu, Dong-Jun Yu, Yang Zhang:
LS-align: an atom-level, flexible ligand structural alignment algorithm for high-throughput virtual screening. Bioinform. 34(13): 2209-2218 (2018) - [j36]Jiansheng Wu, Qiuming Zhang, Weijian Wu, Tao Pang, Haifeng Hu, Wallace K. B. Chan, Xiaoyan Ke, Yang Zhang:
WDL-RF: predicting bioactivities of ligand molecules acting with G protein-coupled receptors by combining weighted deep learning and random forest. Bioinform. 34(13): 2271-2282 (2018) - [j35]Jun Hu, Yang Li, Yang Zhang, Dong-Jun Yu:
ATPbind: Accurate Protein-ATP Binding Site Prediction by Combining Sequence-Profiling and Structure-Based Comparisons. J. Chem. Inf. Model. 58(2): 501-510 (2018) - [j34]Runze Dong, Shuo Pan, Zhenling Peng, Yang Zhang, Jianyi Yang:
mTM-align: a server for fast protein structure database search and multiple protein structure alignment. Nucleic Acids Res. 46(Webserver-Issue): W380-W386 (2018) - [j33]Qi Wu, Zhenling Peng, Yang Zhang, Jianyi Yang:
COACH-D: improved protein-ligand binding sites prediction with refined ligand-binding poses through molecular docking. Nucleic Acids Res. 46(Webserver-Issue): W438-W442 (2018) - [j32]Chun-Qiu Xia, Ke Han, Yong Qi, Yang Zhang, Dong-Jun Yu:
A Self-Training Subspace Clustering Algorithm under Low-Rank Representation for Cancer Classification on Gene Expression Data. IEEE ACM Trans. Comput. Biol. Bioinform. 15(4): 1315-1324 (2018) - 2017
- [j31]Baoji He, S. M. Mortuza, Yanting Wang, Hong-Bin Shen, Yang Zhang:
NeBcon: protein contact map prediction using neural network training coupled with naïve Bayes classifiers. Bioinform. 33(15): 2296-2306 (2017) - [j30]Chengxin Zhang, Peter L. Freddolino, Yang Zhang:
COFACTOR: improved protein function prediction by combining structure, sequence and protein-protein interaction information. Nucleic Acids Res. 45(Webserver-Issue): W291-W299 (2017) - [j29]Yan Wang, Jian Wang, Ruiming Li, Qiang Shi, Zhidong Xue, Yang Zhang:
ThreaDomEx: a unified platform for predicting continuous and discontinuous protein domains by multiple-threading and segment assembly. Nucleic Acids Res. 45(Webserver-Issue): W400-W407 (2017) - [j28]Yan Wang, Jouko Virtanen, Zhidong Xue, Yang Zhang:
I-TASSER-MR: automated molecular replacement for distant-homology proteins using iterative fragment assembly and progressive sequence truncation. Nucleic Acids Res. 45(Webserver-Issue): W429-W434 (2017) - 2016
- [j27]Haiyou Deng, Ya Jia, Yang Zhang:
3DRobot: automated generation of diverse and well-packed protein structure decoys. Bioinform. 32(3): 378-387 (2016) - [j26]Lijun Quan, Qiang Lv, Yang Zhang:
STRUM: structure-based prediction of protein stability changes upon single-point mutation. Bioinform. 32(19): 2936-2946 (2016) - [j25]Xiuzhen Hu, Qiwen Dong, Jianyi Yang, Yang Zhang:
Recognizing metal and acid radical ion-binding sites by integrating ab initio modeling with template-based transferals. Bioinform. 32(21): 3260-3269 (2016) - 2015
- [j24]Ying-Ying Xu, Fan Yang, Yang Zhang, Hong-Bin Shen:
Bioimaging-based detection of mislocalized proteins in human cancers by semi-supervised learning. Bioinform. 31(7): 1111-1119 (2015) - [j23]Wallace K. B. Chan, Hongjiu Zhang, Jianyi Yang, Jeffrey R. Brender, Junguk Hur, Arzucan Özgür, Yang Zhang:
GLASS: a comprehensive database for experimentally validated GPCR-ligand associations. Bioinform. 31(18): 3035-3042 (2015) - [j22]Jing Yang, Bao-Ji He, Richard Jang, Yang Zhang, Hong-Bin Shen:
Accurate disulfide-bonding network predictions improve ab initio structure prediction of cysteine-rich proteins. Bioinform. 31(23): 3773-3781 (2015) - [j21]Shanshan Cheng, Yang Zhang, Charles L. Brooks III:
PCalign: a method to quantify physicochemical similarity of protein-protein interfaces. BMC Bioinform. 16: 33:1-33:12 (2015) - [j20]Jianyi Yang, Yang Zhang:
I-TASSER server: new development for protein structure and function predictions. Nucleic Acids Res. 43(Webserver-Issue): W174-W181 (2015) - [j19]Jeffrey R. Brender, Yang Zhang:
Predicting the Effect of Mutations on Protein-Protein Binding Interactions through Structure-Based Interface Profiles. PLoS Comput. Biol. 11(10) (2015) - 2013
- [j18]Zhidong Xue, Dong Xu, Yan Wang, Yang Zhang:
ThreaDom: extracting protein domain boundary information from multiple threading alignments. Bioinform. 29(13): 247-256 (2013) - [j17]Ying-Ying Xu, Fan Yang, Yang Zhang, Hong-Bin Shen:
An image-based multi-label human protein subcellular localization predictor (iLocator) reveals protein mislocalizations in cancer tissues. Bioinform. 29(16): 2032-2040 (2013) - [j16]Jing Yang, Richard Jang, Yang Zhang, Hong-Bin Shen:
High-accuracy prediction of transmembrane inter-helix contacts and application to GPCR 3D structure modeling. Bioinform. 29(20): 2579-2587 (2013) - [j15]Jianyi Yang, Ambrish Roy, Yang Zhang:
Protein-ligand binding site recognition using complementary binding-specific substructure comparison and sequence profile alignment. Bioinform. 29(20): 2588-2595 (2013) - [j14]Dong Xu, Hua Li, Yang Zhang:
Protein Depth Calculation and the Use for Improving Accuracy of Protein Fold Recognition. J. Comput. Biol. 20(10): 805-816 (2013) - [j13]Aysam Guerler, Brandon Govindarajoo, Yang Zhang:
Mapping Monomeric Threading to Protein-Protein Structure Prediction. J. Chem. Inf. Model. 53(3): 717-725 (2013) - [j12]Jianyi Yang, Ambrish Roy, Yang Zhang:
BioLiP: a semi-manually curated database for biologically relevant ligand-protein interactions. Nucleic Acids Res. 41(Database-Issue): 1096-1103 (2013) - [j11]Pralay Mitra, David Shultis, Yang Zhang:
EvoDesign: de novo protein design based on structural and evolutionary profiles. Nucleic Acids Res. 41(Webserver-Issue): 273-280 (2013) - [j10]Pralay Mitra, David Shultis, Jeffrey R. Brender, Jeff Czajka, David Marsh, Felicia Gray, Tomasz Cierpicki, Yang Zhang:
An Evolution-Based Approach to De Novo Protein Design and Case Study on Mycobacterium tuberculosis. PLoS Comput. Biol. 9(10) (2013) - 2012
- [j9]Ambrish Roy, Jianyi Yang, Yang Zhang:
COFACTOR: an accurate comparative algorithm for structure-based protein function annotation. Nucleic Acids Res. 40(Web-Server-Issue): 471-477 (2012) - 2010
- [j8]Jinrui Xu, Yang Zhang:
How significant is a protein structure similarity with TM-score = 0.5? Bioinform. 26(7): 889-895 (2010) - [j7]Jian Zhang, Yang Zhang:
GPCRRD: G protein-coupled receptor spatial restraint database for 3D structure modeling and function annotation. Bioinform. 26(23): 3004-3005 (2010) - 2008
- [j6]Sitao Wu, Yang Zhang:
A comprehensive assessment of sequence-based and template-based methods for protein contact prediction. Bioinform. 24(7): 924-931 (2008) - [j5]Yang Zhang:
I-TASSER server for protein 3D structure prediction. BMC Bioinform. 9 (2008) - 2006
- [j4]Yang Zhang, Mark E. DeVries, Jeffrey Skolnick:
Structure Modeling of All Identified G Protein-Coupled Receptors in the Human Genome. PLoS Comput. Biol. 2(2) (2006) - [j3]Yang Zhang, Mark E. DeVries, Jeffrey Skolnick:
Correction: Structure Modeling of All Identified G Protein-Coupled Receptors in the Human Genome. PLoS Comput. Biol. 2(3) (2006) - 2004
- [j2]Adrian K. Arakaki, Yang Zhang, Jeffrey Skolnick:
Large-scale assessment of the utility of low-resolution protein structures for biochemical function assignment. Bioinform. 20(7): 1087-1096 (2004) - [j1]Yang Zhang, Jeffrey Skolnick:
SPICKER: A clustering approach to identify near-native protein folds. J. Comput. Chem. 25(6): 865-871 (2004)
Conference and Workshop Papers
- 2013
- [c1]Dong Xu, Hua Li, Yang Zhang:
Fast and Accurate Calculation of Protein Depth by Euclidean Distance Transform. RECOMB 2013: 304-316
Coauthor Index
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