Yinglong Miao

ORCID

Publication Activity (10 Years)

Years Active: 2016-2024
Publications (10 Years): 72

Top Venues

Journal of chemical theory and computation

Journal of chemical information and modeling

Communications biology

The journal of physical chemistry letters

University of Kansas

This page only lists publications with an associated author ORCID identifier.

Affiliation History

University of Kansas Aug 18 2017

United States

Assistant Professor :: Center for Computational Biology and Department of Molecular Biosciences

Publications

Sana Akhter, Zhichao Tang, Jinan Wang, Mercy Haboro, Erik D Holmstrom, Jingxin Wang, Yinglong Miao
Mechanism of Ligand Binding to Theophylline RNA Aptamer. Journal of chemical information and modeling 64 (3) (2024)
Victor A Adediwura, Kushal Koirala, Hung Nguyen Do, Jinan Wang, Yinglong Miao
Understanding the impact of binding free energy and kinetics calculations in modern drug discovery. Expert opinion on drug discovery 19 (6) (2024)
Victor A Adediwura, Kushal Koirala, Hung Nguyen Do, Jinan Wang, Yinglong Miao
Understanding the impact of binding free energy and kinetics calculations in modern drug discovery. Expert opinion on drug discovery 19 (6) (2024)
Jinan Wang, Yinglong Miao
Ligand Gaussian Accelerated Molecular Dynamics 3 (LiGaMD3): Improved Calculations of Binding Thermodynamics and Kinetics of Both Small Molecules and Flexible Peptides. Journal of chemical theory and computation (2024)
Victor A Adediwura, Kushal Koirala, Hung Nguyen Do, Jinan Wang, Yinglong Miao
Understanding the impact of binding free energy and kinetics calculations in modern drug discovery. Expert opinion on drug discovery 19 (6) (2024)
Sana Akhter, Zhichao Tang, Jinan Wang, Mercy Haboro, Erik D Holmstrom, Jingxin Wang, Yinglong Miao
Mechanism of Ligand Binding to Theophylline RNA Aptamer. Journal of chemical information and modeling 64 (3) (2024)
Sana Akhter, Zhichao Tang, Jinan Wang, Mercy Haboro, Erik D Holmstrom, Jingxin Wang, Yinglong Miao
Mechanism of Ligand Binding to Theophylline RNA Aptamer. Journal of chemical information and modeling 64 (3) (2024)
Jinan Wang, Kushal Koirala, Hung Nguyen Do, Yinglong Miao
PepBinding: A Workflow for Predicting Peptide Binding Structures by Combining Peptide Docking and Peptide Gaussian Accelerated Molecular Dynamics Simulations. The journal of physical chemistry. B (2024)
Jinan Wang, Yinglong Miao
Ligand Gaussian Accelerated Molecular Dynamics 3 (LiGaMD3): Improved Calculations of Binding Thermodynamics and Kinetics of Both Small Molecules and Flexible Peptides. Journal of chemical theory and computation (2024)
Yinglong Miao, Michael S Wolfe
Emerging structures and dynamic mechanisms of γ-secretase for Alzheimer's disease. Neural regeneration research 20 (1) (2024)
Jinan Wang, Kushal Koirala, Hung Nguyen Do, Yinglong Miao
PepBinding: A Workflow for Predicting Peptide Binding Structures by Combining Peptide Docking and Peptide Gaussian Accelerated Molecular Dynamics Simulations. The journal of physical chemistry. B 128 (30) (2024)
Victor A Adediwura, Kushal Koirala, Hung Nguyen Do, Jinan Wang, Yinglong Miao
Understanding the impact of binding free energy and kinetics calculations in modern drug discovery. Expert opinion on drug discovery (2024)
Yinglong Miao, Michael S Wolfe
Emerging structures and dynamic mechanisms of γ-secretase for Alzheimer's disease. Neural regeneration research 20 (1) (2024)
Sana Akhter, Zhichao Tang, Jinan Wang, Mercy Haboro, Erik D Holmstrom, Jingxin Wang, Yinglong Miao
Mechanism of Ligand Binding to Theophylline RNA Aptamer. Journal of chemical information and modeling 64 (3) (2024)
Jinan Wang, Yinglong Miao
Ligand Gaussian Accelerated Molecular Dynamics 3 (LiGaMD3): Improved Calculations of Binding Thermodynamics and Kinetics of Both Small Molecules and Flexible Peptides. Journal of chemical theory and computation 20 (14) (2024)
Sana Akhter, Zhichao Tang, Jinan Wang, Mercy Haboro, Erik D Holmstrom, Jingxin Wang, Yinglong Miao
Mechanism of Ligand Binding to Theophylline RNA Aptamer. Journal of chemical information and modeling (2024)
Yinglong Miao, Michael S Wolfe
Emerging structures and dynamic mechanisms of γ-secretase for Alzheimer's disease. Neural regeneration research 20 (1) (2024)
Sana Akhter, Zhichao Tang, Jinan Wang, Mercy Haboro, Erik D Holmstrom, Jingxin Wang, Yinglong Miao
Mechanism of Ligand Binding to Theophylline RNA Aptamer. Journal of chemical information and modeling 64 (3) (2024)
Sana Akhter, Zhichao Tang, Jinan Wang, Mercy Haboro, Erik D Holmstrom, Jingxin Wang, Yinglong Miao
Mechanism of Ligand Binding to Theophylline RNA Aptamer. Journal of chemical information and modeling 64 (3) (2024)
Jinan Wang, Yinglong Miao
Ligand Gaussian Accelerated Molecular Dynamics 2 (LiGaMD2): Improved Calculations of Ligand Binding Thermodynamics and Kinetics with Closed Protein Pocket. Journal of chemical theory and computation 19 (3) (2023)
Jinan Wang, Yinglong Miao
Ligand Gaussian Accelerated Molecular Dynamics 2 (LiGaMD2): Improved Calculations of Ligand Binding Thermodynamics and Kinetics with Closed Protein Pocket. Journal of chemical theory and computation (2023)
Hung Nguyen Do, Jinan Wang, Yinglong Miao
Deep Learning Dynamic Allostery of G-Protein-Coupled Receptors. JACS Au 3 (11) (2023)
Hung Nguyen Do, Sujan Devkota, Apurba Bhattarai, Michael S Wolfe, Yinglong Miao
Effects of presenilin-1 familial Alzheimer's disease mutations on γ-secretase activation for cleavage of amyloid precursor protein. Communications biology 6 (1) (2023)
Shristi Pawnikar, Apurba Bhattarai, S Xiaohu Ouyang, Ramir Vega, Yuan Chen, Yinglong Miao
Critical Non-Covalent Binding Intermediate for an Allosteric Covalent Inhibitor of SUMO E1. The journal of physical chemistry letters 14 (11) (2023)
Jinan Wang, Hung N Do, Kushal Koirala, Yinglong Miao
Predicting Biomolecular Binding Kinetics: A Review. Journal of chemical theory and computation (2023)
Hung Nguyen Do, Yinglong Miao
Deep Boosted Molecular Dynamics: Accelerating Molecular Simulations with Gaussian Boost Potentials Generated Using Probabilistic Bayesian Deep Neural Network. The journal of physical chemistry letters (2023)
Xiaoqing Wu, Remya Ramesh, Jinan Wang, Youguang Zheng, Ahlam M Armaly, Lanjing Wei, Minli Xing, Sudeshna Roy, Lan Lan, Fei Philip Gao, Yinglong Miao, Liang Xu, Jeffrey Aube
Small Molecules Targeting the RNA-Binding Protein HuR Inhibit Tumor Growth in Xenografts. Journal of medicinal chemistry 66 (3) (2023)
Hung Nguyen Do, Sujan Devkota, Apurba Bhattarai, Michael S Wolfe, Yinglong Miao
Effects of presenilin-1 familial Alzheimer's disease mutations on γ-secretase activation for cleavage of amyloid precursor protein. Communications biology 6 (1) (2023)
Xiaoqing Wu, Remya Ramesh, Jinan Wang, Youguang Zheng, Ahlam M Armaly, Lanjing Wei, Minli Xing, Sudeshna Roy, Lan Lan, Fei Philip Gao, Yinglong Miao, Liang Xu, Jeffrey Aube
Small Molecules Targeting the RNA-Binding Protein HuR Inhibit Tumor Growth in Xenografts. Journal of medicinal chemistry 66 (3) (2023)
Hung Nguyen Do, Yinglong Miao
Deep Boosted Molecular Dynamics (DBMD): Accelerating molecular simulations with Gaussian boost potentials generated using probabilistic Bayesian deep neural network. bioRxiv : the preprint server for biology (2023)
Minfei Su, Jinan Wang, Guoqing Xiang, Hung Nguyen Do, Joshua Levitz, Yinglong Miao, Xin-Yun Huang
Structural basis of agonist specificity of α 1A -adrenergic receptor. Nature communications 14 (1) (2023)
Hung Nguyen Do, Jinan Wang, Yinglong Miao
Deep Learning Dynamic Allostery of G-Protein-Coupled Receptors. Research square (2023)
Hung Nguyen Do, Jinan Wang, Yinglong Miao
Deep Learning Dynamic Allostery of G-Protein-Coupled Receptors. Research square (2023)
Hung Nguyen Do, Shweta R Malvankar, Michael S Wolfe, Yinglong Miao
Molecular Dynamics Activation of γ-Secretase for Cleavage of the Notch1 Substrate. ACS chemical neuroscience (2023)
Victor A Adediwura, Yinglong Miao
Mechanistic Insights into Peptide Binding and Deactivation of an Adhesion G Protein-Coupled Receptor. Molecules (Basel, Switzerland) 29 (1) (2023)
Hung Nguyen Do, Sujan Devkota, Apurba Bhattarai, Michael S Wolfe, Yinglong Miao
Effects of presenilin-1 familial Alzheimer's disease mutations on γ-secretase activation for cleavage of amyloid precursor protein. Communications biology 6 (1) (2023)
Hung Nguyen Do, Sujan Devkota, Apurba Bhattarai, Michael S Wolfe, Yinglong Miao
Effects of presenilin-1 familial Alzheimer's disease mutations on γ-secretase activation for cleavage of amyloid precursor protein. Communications biology 6 (1) (2023)
Xiaoqing Wu, Remya Ramesh, Jinan Wang, Youguang Zheng, Ahlam M Armaly, Lanjing Wei, Minli Xing, Sudeshna Roy, Lan Lan, Fei Philip Gao, Yinglong Miao, Liang Xu, Jeffrey Aube
Small Molecules Targeting the RNA-Binding Protein HuR Inhibit Tumor Growth in Xenografts. Journal of medicinal chemistry 66 (3) (2023)
Xiaoqing Wu, Remya Ramesh, Jinan Wang, Youguang Zheng, Ahlam M Armaly, Lanjing Wei, Minli Xing, Sudeshna Roy, Lan Lan, Fei Philip Gao, Yinglong Miao, Liang Xu, Jeffrey Aube
Small Molecules Targeting the RNA-Binding Protein HuR Inhibit Tumor Growth in Xenografts. Journal of medicinal chemistry 66 (3) (2023)
Shristi Pawnikar, Apurba Bhattarai, S Xiaohu Ouyang, Ramir Vega, Yuan Chen, Yinglong Miao
Critical Non-Covalent Binding Intermediate for an Allosteric Covalent Inhibitor of SUMO E1. The journal of physical chemistry letters 14 (11) (2023)
Hung Nguyen Do, Sujan Devkota, Apurba Bhattarai, Michael S Wolfe, Yinglong Miao
Effects of presenilin-1 familial Alzheimer's disease mutations on γ-secretase activation for cleavage of amyloid precursor protein. Communications biology 6 (1) (2023)
Victor A Adediwura, Yinglong Miao
Mechanistic Insights into Peptide Binding and Deactivation of an Adhesion G Protein-Coupled Receptor. Molecules (Basel, Switzerland) 29 (1) (2023)
Victor A Adediwura, Yinglong Miao
Mechanistic Insights into Peptide Binding and Deactivation of an Adhesion G Protein-Coupled Receptor. Molecules (Basel, Switzerland) 29 (1) (2023)
Xiaoqing Wu, Remya Ramesh, Jinan Wang, Youguang Zheng, Ahlam M Armaly, Lanjing Wei, Minli Xing, Sudeshna Roy, Lan Lan, Fei Philip Gao, Yinglong Miao, Liang Xu, Jeffrey Aube
Small Molecules Targeting the RNA-Binding Protein HuR Inhibit Tumor Growth in Xenografts. Journal of medicinal chemistry (2023)
Shristi Pawnikar, Apurba Bhattarai, S Xiaohu Ouyang, Ramir Vega, Yuan Chen, Yinglong Miao
Critical Non-Covalent Binding Intermediate for an Allosteric Covalent Inhibitor of SUMO E1. The journal of physical chemistry letters (2023)
Jinan Wang, Yinglong Miao
Ligand Gaussian Accelerated Molecular Dynamics 2 (LiGaMD2): Improved Calculations of Ligand Binding Thermodynamics and Kinetics with Closed Protein Pocket. Journal of chemical theory and computation 19 (3) (2023)
Hung Nguyen Do, Jinan Wang, Yinglong Miao
Deep Learning Dynamic Allostery of G-Protein-Coupled Receptors. Research square (2023)
Jinan Wang, Apurba Bhattarai, Hung N Do, Sana Akhter, Yinglong Miao
Molecular Simulations and Drug Discovery of Adenosine Receptors. Molecules (Basel, Switzerland) 27 (7) (2022)
Minfei Su, Navid Paknejad, Lan Zhu, Jinan Wang, Hung Nguyen Do, Yinglong Miao, Wei Liu, Richard K Hite, Xin-Yun Huang
Structures of β 1 -adrenergic receptor in complex with Gs and ligands of different efficacies. Nature communications 13 (1) (2022)
Shristi Pawnikar, Brenda S Magenheimer, Ericka Nevarez Munoz, Robin L Maser, Yinglong Miao
Mechanism of tethered agonist-mediated signaling by polycystin-1. Proceedings of the National Academy of Sciences of the United States of America 119 (19) (2022)
Jinan Wang, Yinglong Miao
Protein-Protein Interaction-Gaussian Accelerated Molecular Dynamics (PPI-GaMD): Characterization of Protein Binding Thermodynamics and Kinetics. Journal of chemical theory and computation 18 (3) (2022)
Apurba Bhattarai, Sujan Devkota, Hung Nguyen Do, Jinan Wang, Sanjay Bhattarai, Michael S Wolfe, Yinglong Miao
Mechanism of Tripeptide Trimming of Amyloid β-Peptide 49 by γ-Secretase. Journal of the American Chemical Society 144 (14) (2022)
Hung N Do, Jinan Wang, Apurba Bhattarai, Yinglong Miao
GLOW: A Workflow Integrating Gaussian-Accelerated Molecular Dynamics and Deep Learning for Free Energy Profiling. Journal of chemical theory and computation 18 (3) (2022)
Matthew M Copeland, Hung N Do, Lane William Votapka, Keya Joshi, Jinan Wang, Rommie Elizabeth Amaro, Yinglong Miao
Gaussian Accelerated Molecular Dynamics in OpenMM. The journal of physical chemistry. B 126 (31) (2022)
Apurba Bhattarai, Sujan Devkota, Hung Nguyen Do, Jinan Wang, Sanjay Bhattarai, Michael S Wolfe, Yinglong Miao
Correction to "Mechanism of Tripeptide Trimming of Amyloid β-Peptide 49 by γ-Secretase". Journal of the American Chemical Society 144 (20) (2022)
Frédéric Célerse, Théo Jaffrelot Inizan, Louis Lagardère, Olivier Adjoua, Pierre Monmarché, Yinglong Miao, Etienne Derat, Jean-Philip Piquemal
An Efficient Gaussian-Accelerated Molecular Dynamics (GaMD) Multilevel Enhanced Sampling Strategy: Application to Polarizable Force Fields Simulations of Large Biological Systems. Journal of chemical theory and computation 18 (2) (2022)
Hung N Do, Allan Haldane, Ronald M Levy, Yinglong Miao
Unique features of different classes of G-protein-coupled receptors revealed from sequence coevolutionary and structural analysis. Proteins (2021)
Jinan Wang, Yinglong Miao
Peptide Gaussian accelerated molecular dynamics (Pep-GaMD): Enhanced sampling and free energy and kinetics calculations of peptide binding. The Journal of chemical physics 153 (15) (2021)
Jinan Wang, Pablo R Arantes, Apurba Bhattarai, Rohaine V Hsu, Shristi Pawnikar, Yu-Ming M Huang, Giulia Palermo, Yinglong Miao
Gaussian accelerated molecular dynamics (GaMD): principles and applications. Wiley interdisciplinary reviews. Computational molecular science 11 (5) (2021)
Christopher J Draper-Joyce, Rebecca Bhola, Jinan Wang, Apurba Bhattarai, Anh T N Nguyen, India Cowie-Kent, Kelly O'Sullivan, Ling Yeong Chia, Hariprasad Venugopal, Celine Valant, David M Thal, Denise Wootten, Nicolas Panel, Jens Carlsson, Macdonald J Christie, Paul J White, Peter Scammells, Lauren T May, Patrick M Sexton, Radostin Danev, Yinglong Miao, Alisa Glukhova, Wendy L Imlach, Arthur Christopoulos
Positive allosteric mechanisms of adenosine A1 receptor-mediated analgesia. Nature 597 (7877) (2021)
Apurba Bhattarai, Shristi Pawnikar, Yinglong Miao
Mechanism of Ligand Recognition by Human ACE2 Receptor. The journal of physical chemistry letters 12 (20) (2021)
Yinglong Miao, Apurba Bhattarai, Jinan Wang
Ligand Gaussian Accelerated Molecular Dynamics (LiGaMD): Characterization of Ligand Binding Thermodynamics and Kinetics. Journal of chemical theory and computation 16 (9) (2020)
Apurba Bhattarai, Jinan Wang, Yinglong Miao
G-Protein-Coupled Receptor-Membrane Interactions Depend on the Receptor Activation State. Journal of computational chemistry 41 (5) (2019)
Jinan Wang, Yinglong Miao
Mechanistic Insights into Specific G Protein Interactions with Adenosine Receptors. The journal of physical chemistry. B 123 (30) (2019)
Yinglong Miao
Acceleration of biomolecular kinetics in Gaussian accelerated molecular dynamics. The Journal of chemical physics 149 (7) (2018)
Yinglong Miao, Yu-Ming M Huang, Ross C Walker, J Andrew McCammon, Chia-En A Chang
Ligand Binding Pathways and Conformational Transitions of the HIV Protease. Biochemistry 57 (9) (2018)
Yu-Ming M Huang, J Andrew McCammon, Yinglong Miao
Replica Exchange Gaussian Accelerated Molecular Dynamics: Improved Enhanced Sampling and Free Energy Calculation. Journal of chemical theory and computation 14 (4) (2018)
Yinglong Miao, J Andrew McCammon
Mechanism of the G-protein mimetic nanobody binding to a muscarinic G-protein-coupled receptor. Proceedings of the National Academy of Sciences of the United States of America 115 (12) (2018)
Alisha D Caliman, Yinglong Miao, James A McCammon
Mapping the allosteric sites of the A2A adenosine receptor. Chemical biology & drug design 91 (1) (2017)
Ole Juul Andersen, Michael Wulff Risør, Emil Christian Poulsen, Niels Chr Nielsen, Yinglong Miao, Jan J Enghild, Birgit Schiøtt
Reactive Center Loop Insertion in α-1-Antitrypsin Captured by Accelerated Molecular Dynamics Simulation. Biochemistry 56 (4) (2017)
Yui Tik Pang, Yinglong Miao, Yi Wang, J Andrew McCammon
Gaussian Accelerated Molecular Dynamics in NAMD. Journal of chemical theory and computation 13 (1) (2016)
Julie Grouleff, Heidi Koldsø, Yinglong Miao, Birgit Schiøtt
Ligand Binding in the Extracellular Vestibule of the Neurotransmitter Transporter Homologue LeuT. ACS chemical neuroscience 8 (3) (2016)

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Publication Activity (10 Years)

Top Topics

Top Venues

Yinglong Miao