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2020 – today
- 2022
[j23]Jiangbo Liu, Xinxin Jing, Mengmeng Liu, Fan Li, Min Li, Qian Li, Jiye Shi
, Jiang Li, Lihua Wang, Xiuhai Mao, Xiaolei Zuo, Chunhai Fan:
Mechano-fluorescence actuation in single synaptic vesicles with a DNA framework nanomachine. Sci. Robotics 7(73) (2022)- 2021
- [j22]Dominik Schwarz, Guy Georges, Sebastian Kelm, Jiye Shi, Anna Vangone, Charlotte M. Deane:
Co-evolutionary distance predictions contain flexibility information. Bioinform. 38(1): 65-72 (2021) - [j21]Andreu Vall, Yogesh Sabnis, Jiye Shi, Reiner Class, Sepp Hochreiter, Günter Klambauer:
The Promise of AI for DILI Prediction. Frontiers Artif. Intell. 4: 638410 (2021) - [j20]Matthew I. J. Raybould, Claire Marks, Aleksandr Kovaltsuk, Alan P. Lewis, Jiye Shi, Charlotte M. Deane:
Public Baseline and shared response structures support the theory of antibody repertoire functional commonality. PLoS Comput. Biol. 17(3) (2021) - 2020
- [j19]Wing Ki Wong, Claire Marks, Jinwoo Leem, Alan P. Lewis, Jiye Shi, Charlotte M. Deane:
TCRBuilder: multi-state T-cell receptor structure prediction. Bioinform. 36(11): 3580-3581 (2020) - [j18]Matthew I. J. Raybould, Claire Marks, Alan P. Lewis, Jiye Shi, Alexander Bujotzek, Bruck Taddese, Charlotte M. Deane:
Thera-SAbDab: the Therapeutic Structural Antibody Database. Nucleic Acids Res. 48(Database-Issue): D383-D388 (2020)
2010 – 2019
- 2019
- [j17]Zhaoqiang Chen, Xinben Zhang, Cheng Peng, Jinan Wang, Zhijian Xu, Kaixian Chen, Jiye Shi, Weiliang Zhu:
D3Pockets: A Method and Web Server for Systematic Analysis of Protein Pocket Dynamics. J. Chem. Inf. Model. 59(8): 3353-3358 (2019) - [j16]Zhijian Xu, Qian Zhang, Jiye Shi, Weiliang Zhu:
Underestimated Noncovalent Interactions in Protein Data Bank. J. Chem. Inf. Model. 59(8): 3389-3399 (2019) - 2018
- [j15]Claire Marks, Jiye Shi, Charlotte M. Deane:
Predicting loop conformational ensembles. Bioinform. 34(6): 949-956 (2018) - [j14]Saulo Henrique Pires de Oliveira, Eleanor C. Law, Jiye Shi, Charlotte M. Deane:
Sequential search leads to faster, more efficient fragment-based de novo protein structure prediction. Bioinform. 34(7): 1132-1140 (2018) - 2017
- [j13]Saulo Henrique Pires de Oliveira, Jiye Shi, Charlotte M. Deane:
Comparing co-evolution methods and their application to template-free protein structure prediction. Bioinform. 33(3): 373-381 (2017) - [j12]Claire Marks, Jaroslaw Nowak, Stefan Klostermann, Guy Georges, James Dunbar, Jiye Shi, Sebastian Kelm, Charlotte M. Deane:
Sphinx: merging knowledge-based and ab initio approaches to improve protein loop prediction. Bioinform. 33(9): 1346-1353 (2017) - [j11]Qian Zhang, Zhijian Xu, Jiye Shi, Weiliang Zhu:
Underestimated Halogen Bonds Forming with Protein Backbone in Protein Data Bank. J. Chem. Inf. Model. 57(7): 1529-1534 (2017) - 2015
- [c3]Nathaniel Powers, Alexander Alling, Kiara Osolinsky, Tolga Soyata, Meng Zhu, Haoliang Wang, He Ba, Wendi B. Heinzelman, Jiye Shi, Minseok Kwon:
The Cloudlet Accelerator: Bringing Mobile-Cloud Face Recognition into Real-Time. GLOBECOM Workshops 2015: 1-7 - 2014
- [j10]Konrad Krawczyk, Xiaofeng Liu, Terry Baker, Jiye Shi, Charlotte M. Deane:
Improving B-cell epitope prediction and its application to global antibody-antigen docking. Bioinform. 30(16): 2288-2294 (2014) - [j9]Henry R. Wilman, Jean-Paul Ebejer, Jiye Shi, Charlotte M. Deane, Bernhard Knapp:
Crowdsourcing Yields a New Standard for Kinks in Protein Helices. J. Chem. Inf. Model. 54(9): 2585-2593 (2014) - [j8]James Dunbar, Konrad Krawczyk, Jinwoo Leem, Terry Baker, Angelika Fuchs, Guy Georges, Jiye Shi, Charlotte M. Deane:
SAbDab: the structural antibody database. Nucleic Acids Res. 42(Database-Issue): 1140-1146 (2014) - [j7]James Dunbar, Bernhard Knapp, Angelika Fuchs, Jiye Shi, Charlotte M. Deane:
Examining Variable Domain Orientations in Antigen Receptors Gives Insight into TCR-Like Antibody Design. PLoS Comput. Biol. 10(9) (2014) - [c2]Minseok Kwon, Zuochao Dou, Wendi B. Heinzelman, Tolga Soyata, He Ba, Jiye Shi:
Use of Network Latency Profiling and Redundancy for Cloud Server Selection. IEEE CLOUD 2014: 826-832 - 2013
- [j6]Jean-Paul Ebejer, Jamie R. Hill, Sebastian Kelm, Jiye Shi, Charlotte M. Deane:
Memoir: template-based structure prediction for membrane proteins. Nucleic Acids Res. 41(Webserver-Issue): 379-383 (2013) - [c1]He Ba, Wendi Rabiner Heinzelman, Charles-Antoine Janssen, Jiye Shi:
Mobile computing - A green computing resource. WCNC 2013: 4451-4456 - 2011
- [j5]Jamie R. Hill, Sebastian Kelm, Jiye Shi, Charlotte M. Deane:
Environment specific substitution tables improve membrane protein alignment. Bioinform. 27(13): 15-23 (2011) - 2010
- [j4]Sebastian Kelm, Jiye Shi, Charlotte M. Deane:
MEDELLER: homology-based coordinate generation for membrane proteins. Bioinform. 26(22): 2833-2840 (2010)
2000 – 2009
- 2009
- [j3]Sebastian Kelm, Jiye Shi, Charlotte M. Deane:
iMembrane: homology-based membrane-insertion of proteins. Bioinform. 25(8): 1086-1088 (2009) - 2003
- [j2]A. Vinayagam, Jiye Shi, Ganesan Pugalenthi, B. Meenakshi, Tom L. Blundell, Ramanathan Sowdhamini:
DDBASE2.0: updated domain database with improved identification of structural domains. Bioinform. 19(14): 1760-1764 (2003) - 2001
- [j1]Paul I. W. de Bakker, Alex Bateman, David F. Burke, Ricardo Núñez Miguel, Kenji Mizuguchi, Jiye Shi, Hiroki Shirai, Tom L. Blundell:
HOMSTRAD: adding sequence information to structure-based alignments of homologous protein families. Bioinform. 17(8): 748-749 (2001)
Coauthor Index
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