Works by Luo, Ray

Results: 35

Functional annotation of the Hippo pathway somatic mutations in human cancers.

Published in:

Nature Communications, 2024, v. 14, n. 1, p. 1, doi. 10.1038/s41467-024-54480-y

By:

Han, Han;
Huang, Zhen;
Xu, Congsheng;
Seo, Gayoung;
An, Jeongmin;
Yang, Bing;
Liu, Yuhan;
Lan, Tian;
Yan, Jiachen;
Ren, Shanshan;
Xu, Yue;
Xiao, Di;
Yan, Jonathan K.;
Ahn, Claire;
Fishman, Dmitry A.;
Meng, Zhipeng;
Guan, Kun-Liang;
Qi, Ruxi;
Luo, Ray;
Wang, Wenqi

Publication type:

Article

In Vivo, High-Throughput Selection of Thermostable Cyclohexanone Monooxygenase (CHMO).

Published in:

Catalysts (2073-4344), 2020, v. 10, n. 8, p. 935, doi. 10.3390/catal10080935

By:

Maxel, Sarah;
Zhang, Linyue;
King, Edward;
Acosta, Ana Paula;
Luo, Ray;
Li, Han

Publication type:

Article

Exploring a coarse-grained distributive strategy for finite-difference Poisson-Boltzmann calculations.

Published in:

Journal of Molecular Modeling, 2011, v. 17, n. 8, p. 1985, doi. 10.1007/s00894-010-0904-4

By:

Hsieh, Meng-Juei;
Luo, Ray

Publication type:

Article

Physical scoring function based on AMBER force field and Poisson-Boltzmann implicit solvent for protein structure prediction.

Published in:

Proteins, 2004, v. 56, n. 3, p. 475, doi. 10.1002/prot.20133

By:

Hsieh, Meng-Juei;
Luo, Ray

Publication type:

Article

Targeting SHP2 Cryptic Allosteric Sites for Effective Cancer Therapy.

Published in:

International Journal of Molecular Sciences, 2024, v. 25, n. 11, p. 6201, doi. 10.3390/ijms25116201

By:

Rehman, Ashfaq Ur;
Zhao, Cizhang;
Wu, Yongxian;
Zhu, Qiang;
Luo, Ray

Publication type:

Article

Recent Advances in Biomolecular Recognition.

Published in:

2023

By:

Zhu, Qiang;
Luo, Ray

Publication type:

Editorial

Molecular Basis for Polyketide Ketoreductase–Substrate Interactions.

Published in:

International Journal of Molecular Sciences, 2020, v. 21, n. 20, p. 7562, doi. 10.3390/ijms21207562

By:

Zhao, Shiji;
Ni, Fanglue;
Qiu, Tianyin;
Wolff, Jacob T.;
Tsai, Shiou-Chuan;
Luo, Ray

Publication type:

Article

Orthogonal glycolytic pathway enables directed evolution of noncanonical cofactor oxidase.

Published in:

Nature Communications, 2022, v. 13, n. 1, p. 1, doi. 10.1038/s41467-022-35021-x

By:

King, Edward;
Maxel, Sarah;
Zhang, Yulai;
Kenney, Karissa C.;
Cui, Youtian;
Luu, Emma;
Siegel, Justin B.;
Weiss, Gregory A.;
Luo, Ray;
Li, Han

Publication type:

Article

Directed evolution of phosphite dehydrogenase to cycle noncanonical redox cofactors via universal growth selection platform.

Published in:

Nature Communications, 2022, v. 13, n. 1, p. 1, doi. 10.1038/s41467-022-32727-w

By:

Zhang, Linyue;
King, Edward;
Black, William B.;
Heckmann, Christian M.;
Wolder, Allison;
Cui, Youtian;
Nicklen, Francis;
Siegel, Justin B.;
Luo, Ray;
Paul, Caroline E.;
Li, Han

Publication type:

Article

Force field influences in β-hairpin folding simulations.

Published in:

Protein Science: A Publication of the Protein Society, 2006, v. 15, n. 11, p. 2642, doi. 10.1110/ps.062438006

By:

Lwin, Thu Zar;
Luo, Ray

Publication type:

Article

Submillisecond Optical Reporting of Membrane Potential In Situ Using a Neuronal Tracer Dye.

Published in:

Journal of Neuroscience, 2009, v. 29, n. 29, p. 9197, doi. 10.1523/JNEUROSCI.1240-09.2009

By:

Bradley, Jonathan;
Luo, Ray;
Otis, Thomas S.;
DiGregorio, David A.

Publication type:

Article

Elucidation of WW domain ligand binding specificities in the Hippo pathway reveals STXBP4 as YAP inhibitor.

Published in:

EMBO Journal, 2020, v. 39, n. 1, p. N.PAG, doi. 10.15252/embj.2019102406

By:

Vargas, Rebecca E;
Duong, Vy Thuy;
Han, Han;
Ta, Albert Paul;
Chen, Yuxuan;
Zhao, Shiji;
Yang, Bing;
Seo, Gayoung;
Chuc, Kimberly;
Oh, Sunwoo;
El Ali, Amal;
Razorenova, Olga V;
Chen, Junjie;
Luo, Ray;
Li, Xu;
Wang, Wenqi

Publication type:

Article

Dynamical important residue network (DIRN): network inference via conformational change.

Published in:

Bioinformatics, 2019, v. 35, n. 22, p. 4664, doi. 10.1093/bioinformatics/btz298

By:

Li, Quan;
Luo, Ray;
Chen, Hai-Feng

Publication type:

Article

Assessment of linear finite-difference Poisson–Boltzmann solvers.

Published in:

Journal of Computational Chemistry, 2010, v. 31, n. 8, p. 1689, doi. 10.1002/jcc.21456

By:

WANG, JUN;
LUO, RAY

Publication type:

Article

The Amber biomolecular simulation programs.

Published in:

Journal of Computational Chemistry, 2005, v. 26, n. 16, p. 1668, doi. 10.1002/jcc.20290

By:

Case, David A.;
Cheatham III, Thomas E.;
Darden, Tom;
Gohlke, Holger;
Luo, Ray;
Merz Jr., Kenneth M.;
Onufriev, Alexey;
Simmerling, Carlos;
Bing Wang;
Woods, Robert J.

Publication type:

Article

A point-charge force field for molecular mechanics simulations of proteins based on condensed-phase quantum mechanical calculations.

Published in:

Journal of Computational Chemistry, 2003, v. 24, n. 16, p. 1999

By:

Yong Duan;
Chun Wu;
Shibasish Chowdhury;
Mathew C. Lee;
Guoming Xiong;
Wei Zhang;
Rong Yang;
Piotr Cieplak;
Ray Luo;
Taisung Lee;
James Caldwell;
Junmei Wang;
Peter Kollman

Publication type:

Article

Accelerated Poisson-Boltzmann calculations for static and dynamic systems.

Published in:

Journal of Computational Chemistry, 2002, v. 23, n. 13, p. 1244, doi. 10.1002/jcc.10120

By:

Luo, Ray;
David, Laurent;
Gilson, Michael K.

Publication type:

Article

Comparison of generalized born and poisson models: Energetics and dynamics of HIV protease.

Published in:

Journal of Computational Chemistry, 2000, v. 21, n. 4, p. 295, doi. 10.1002/(SICI)1096-987X(200003)21:4<295::AID-JCC5>3.0.CO;2-8

By:

David, Laurent;
Luo, Ray;
Gilson, Michael K.

Publication type:

Article

Virtual screening using molecular simulations.

Published in:

Proteins, 2011, v. 79, n. 6, p. 1940, doi. 10.1002/prot.23018

By:

Yang, Tianyi;
Wu, Johnny C.;
Yan, Chunli;
Wang, Yuanfeng;
Luo, Ray;
Gonzales, Michael B.;
Dalby, Kevin N.;
Ren, Pengyu

Publication type:

Article

A dopaminergic switch for fear to safety transitions.

Published in:

Nature Communications, 2018, v. 9, n. 1, p. 1, doi. 10.1038/s41467-018-04784-7

By:

Ray Luo;
Akira Uematsu;
Weitemier, Adam;
Aquili, Luca;
Koivumaa, Jenny;
McHugh, Thomas J.;
Johansen, Joshua P.

Publication type:

Article

Novel breath biomarkers identification for early detection of hepatocellular carcinoma and cirrhosis using ML tools and GCMS.

Published in:

PLoS ONE, 2023, v. 18, n. 11, p. 1, doi. 10.1371/journal.pone.0287465

By:

Ain Nazir, Noor ul;
Shaukat, Muhammad Haroon;
Luo, Ray;
Abbas, Shah Rukh

Publication type:

Article

Computational approaches for the design of modulators targeting protein-protein interactions.

Published in:

Expert Opinion on Drug Discovery, 2023, v. 18, n. 3, p. 315, doi. 10.1080/17460441.2023.2171396

By:

Rehman, Ashfaq Ur;
Khurshid, Beenish;
Ali, Yasir;
Rasheed, Salman;
Wadood, Abdul;
Ng, Ho-Leung;
Chen, Hai-Feng;
Wei, Zhiqiang;
Luo, Ray;
Zhang, Jian

Publication type:

Article

An efficient second‐order poisson–boltzmann method.

Published in:

Journal of Computational Chemistry, 2019, v. 40, n. 12, p. 1257, doi. 10.1002/jcc.25783

By:

Wei, Haixin;
Luo, Ray;
Qi, Ruxi

Publication type:

Article

Numerical interpretation of molecular surface field in dielectric modeling of solvation.

Published in:

Journal of Computational Chemistry, 2017, v. 38, n. 14, p. 1057, doi. 10.1002/jcc.24782

By:

Wang, Changhao;
Xiao, Li;
Luo, Ray

Publication type:

Article

Calculating protein-ligand binding affinities with MMPBSA: Method and error analysis.

Published in:

Journal of Computational Chemistry, 2016, v. 37, n. 27, p. 2436, doi. 10.1002/jcc.24467

By:

Wang, Changhao;
Nguyen, Peter H.;
Pham, Kevin;
Huynh, Danielle;
Le, Thanh‐Binh Nancy;
Wang, Hongli;
Ren, Pengyu;
Luo, Ray

Publication type:

Article

Atomistic Mechanism of MicroRNA Translation Upregulation via Molecular Dynamics Simulations.

Published in:

PLoS ONE, 2012, v. 7, n. 8, p. 1, doi. 10.1371/journal.pone.0043788

By:

Wei Ye;
Fang Qin;
Jian Zhang;
Ray Luo;
Hai-Feng Chen;
Csermely, Peter

Publication type:

Article

Role of artificial intelligence in revolutionizing drug discovery.

Published in:

Fundamental Research, 2025, v. 5, n. 3, p. 1273, doi. 10.1016/j.fmre.2024.04.021

By:

Ur Rehman, Ashfaq;
Mingyu Li;
Binjian Wu;
Ali, Yasir;
Rasheed, Salman;
Shaheen, Sana;
Xinyi Liu;
Ray Luo;
Jian Zhang

Publication type:

Article

Crystal Structure of StnA for the Biosynthesis of Antitumor Drug Streptonigrin Reveals a Unique Substrate Binding Mode.

Published in:

Scientific Reports, 2017, p. 40254, doi. 10.1038/srep40254

By:

Qian, Tianle;
Wo, Jing;
Zhang, Yan;
Song, Quanwei;
Feng, Guoqiang;
Luo, Ray;
Lin, Shuangjin;
Wu, Geng;
Chen, Hai-Feng

Publication type:

Article

Dynamics Correlation Network for Allosteric Switching of PreQ<sub>1</sub> Riboswitch.

Published in:

Scientific Reports, 2016, p. 31005, doi. 10.1038/srep31005

By:

Wang, Wei;
Jiang, Cheng;
Zhang, Jinmai;
Ye, Wei;
Luo, Ray;
Chen, Hai-Feng

Publication type:

Article

Synergistic Modification Induced Specific Recognition between Histone and TRIM24 via Fluctuation Correlation Network Analysis.

Published in:

Scientific Reports, 2016, p. 24587, doi. 10.1038/srep24587

By:

Zhang, Jinmai;
Luo, Huajie;
Liu, Hao;
Ye, Wei;
Luo, Ray;
Chen, Hai-Feng

Publication type:

Article

Artistic Intelligence.

Published in:

Kritikos, 2020, p. 1

By:

Luo, Ray

Publication type:

Article

Cover Image.

Published in:

2018

By:

Liu, Hao;
Song, Dong;
Lu, Hui;
Luo, Ray;
Chen, Hai‐Feng

Publication type:

Image

Intrinsically disordered protein‐specific force field CHARMM36IDPSFF.

Published in:

Chemical Biology & Drug Design, 2018, v. 92, n. 4, p. 1722, doi. 10.1111/cbdd.13342

By:

Liu, Hao;
Song, Dong;
Lu, Hui;
Luo, Ray;
Chen, Hai‐Feng

Publication type:

Article

ff14IDPs force field improving the conformation sampling of intrinsically disordered proteins.

Published in:

2017

By:

Song, Dong;
Wang, Wei;
Ye, Wei;
Ji, Dingjue;
Luo, Ray;
Chen, Hai ‐ Feng

Publication type:

Editorial

New Force Field on Modeling Intrinsically Disordered Proteins.

Published in:

Chemical Biology & Drug Design, 2014, v. 84, n. 3, p. 253, doi. 10.1111/cbdd.12314

By:

Wang, Wei;
Ye, Wei;
Jiang, Cheng;
Luo, Ray;
Chen, Hai ‐ Feng

Publication type:

Article