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1

In silico identification of drug candidates against COVID-19

Wu, Yifei, Chang, Kuan Y., Lou, Lei, Edwards, Lorette G., Doma, Bly K., Xie, Zhong-Ru

Journal:

Informatics in Medicine Unlocked

Année:

2020

Fichier:

PDF, 4.60 MB

2020

2

An interaction-motif-based scoring function for protein-ligand docking

Zhong-Ru Xie, Ming-Jing Hwang

Journal:

BMC Bioinformatics

Année:

2010

Langue:

english

Fichier:

PDF, 1.23 MB

english, 2010

3

The role of microRNA in the delayed negative feedback regulation of gene expression

Zhong-Ru Xie, Hsih-Te Yang, Wei-Chung Liu, Ming-Jing Hwang

Journal:

Biochemical and Biophysical Research Communications

Année:

2007

Langue:

english

Fichier:

PDF, 168 KB

english, 2007

4

A coarse-grained model for the simulations of biomolecular interactions in cellular environments

Xie, Zhong-Ru, Chen, Jiawen, Wu, Yinghao

Journal:

The Journal of Chemical Physics

Année:

2014

Langue:

english

Fichier:

PDF, 2.23 MB

english, 2014

5

Linking 3D and 2D binding kinetics of membrane proteins by multiscale simulations

Xie, Zhong-Ru, Chen, Jiawen, Wu, Yinghao

Journal:

Protein Science

Année:

2014

Langue:

english

Fichier:

PDF, 511 KB

english, 2014

6

A multiscale model for simulating binding kinetics of proteins with flexible linkers

Chen, Jiawen, Xie, Zhong-Ru, Wu, Yinghao

Journal:

Proteins: Structure, Function, and Bioinformatics

Année:

2014

Langue:

english

Fichier:

PDF, 584 KB

english, 2014

7

Decomposing the space of protein quaternary structures with the interface fragment pair library

Xie, Zhong-Ru, Chen, Jiawen, Zhao, Yilin, Wu, Yinghao

Journal:

BMC Bioinformatics

Année:

2015

Langue:

english

Fichier:

PDF, 2.10 MB

english, 2015

8

Study of protein structural deformations under external mechanical perturbations by a coarse-grained simulation method

Chen, Jiawen, Xie, Zhong-Ru, Wu, Yinghao

Journal:

Biomechanics and Modeling in Mechanobiology

Année:

2016

Langue:

english

Fichier:

PDF, 2.46 MB

english, 2016

9

A Multi-Scale Model for the Assembling Kinetics of Protein Complexes

Xie, Zhong-Ru, Chen, Jiawen, Wu, Yinghao

Journal:

Journal of Physical Chemistry B

Année:

2016

Langue:

english

Fichier:

PDF, 2.65 MB

english, 2016

10

Elucidating the general principles of cell adhesion with a coarse-grained simulation model

Chen, Jiawen, Xie, Zhong-Ru, Wu, Yinghao

Journal:

Molecular BioSystems

Année:

2016

Langue:

english

Fichier:

PDF, 5.89 MB

english, 2016

11

Elucidating the Functional Roles of Spatial Organization in Cross-Membrane Signal Transduction by a Hybrid Simulation Method

Chen, Jiawen, Xie, Zhong-Ru, Wu, Yinghao

Journal:

Journal of Computational Biology

Année:

2016

Langue:

english

Fichier:

PDF, 1.16 MB

english, 2016

12

A Computational Model for Kinetic Studies of Cadherin Binding and Clustering

Chen, Jiawen, Newhall, Jillian, Xie, Zhong-Ru, Leckband, Deborah, Wu, Yinghao

Journal:

Biophysical Journal

Année:

2016

Langue:

english

Fichier:

PDF, 1.60 MB

english, 2016

13

Understand protein functions by comparing the similarity of local structural environments

Chen, Jiawen, Xie, Zhong-Ru, Wu, Yinghao

Journal:

Biochimica et Biophysica Acta (BBA) - Proteins and Proteomics

Année:

2017

Langue:

english

Fichier:

PDF, 2.58 MB

english, 2017

14

[PUBLISHED BY IMPERIAL COLLEGE PRESS AND DISTRIBUTED BY WORLD SCIENTIFIC PUBLISHING CO. 4th Asia-Pacific Bioinformatics Conference - Taipei, Taiwan (13 – 16 February 2006)] Proceedings of the 4th Asia-Pacific Bioinformatics Conference - A NEW NEURAL NETWORK FOR B-TURN PREDICTION: THE EFFECT OF SITE-SPECIFIC AMINO ACID PREFERENCE

XIE, ZHONG-RU, HWANG, MING-JING

Langue:

english

Fichier:

PDF, 767 KB

english

15

Predicting Protein–protein Association Rates using Coarse-grained Simulation and Machine Learning

Xie, Zhong-Ru, Chen, Jiawen, Wu, Yinghao

Journal:

Scientific Reports

Année:

2017

Langue:

english

Fichier:

PDF, 1.71 MB

english, 2017

16

Computational Modeling of the Interplay between Cadherin-Mediated Cell Adhesion and Wnt Signaling Pathway

Chen, Jiawen, Xie, Zhong-Ru, Wu, Yinghao, Andl, Claudia D.

Journal:

Année:

2014

Langue:

english

Fichier:

PDF, 2.36 MB

english, 2014

17

Integrating Structural Information to Study the Dynamics of Protein-Protein Interactions in Cells

Wang, Bo, Xie, Zhong-Ru, Chen, Jiawen, Wu, Yinghao

Journal:

Année:

2018

Langue:

english

Fichier:

PDF, 3.87 MB

english, 2018

18

Elucidating the Inhibitory Effect of Resveratrol and Its Structural Analogs on Selected Nucleotide-Related Enzymes

Wu, Yifei, Hsieh, Tze-chen, Wu, Joseph M., Wang, Xiaoxiao, Christopher, Joshua S., Pham, Amanda H., Swaby, Justin David-Li, Lou, Lei, Xie, Zhong-Ru

Journal:

Année:

2020

Fichier:

PDF, 7.09 MB

2020

19

Structural and Functional Enrichment Analyses for Antimicrobial Peptides

Lo, Sheng C., Xie, Zhong-Ru, Chang, Kuan Y.

Journal:

International Journal of Molecular Sciences

Année:

2020

Fichier:

PDF, 4.94 MB

2020