Xiakun Chu

发表

Exploration of nucleoprotein α-MoRE and XD interactions of Nipah and Hendra viruses

S. Longhi, Jin Wang, Wen-Ting Chu, 2018, Journal of Molecular Modeling.

Effects of flexibility and electrostatic interactions on the coupled binding-folding mechanisms of Chz.core and H2A.z-H2B.

Jin Wang, Chuanbo Liu, Wen-Ting Chu, 2017, Molecular bioSystems.

Dynamics and Pathways of Chromosome Structural Organizations during Cell Transdifferentiation

Jin Wang, Xiakun Chu, 2021, JACS Au.

Investigating the trade-off between folding and function in a multidomain Y-family DNA polymerase

Z. Suo, Jin Wang, Xiakun Chu, 2020, eLife.

Insights into Phosphorylation-Induced Protein Allostery and Conformational Dynamics of Glycogen Phosphorylase via Integrative Structural Mass Spectrometry and In Silico Modeling.

Yuan Luo, Yong Wang, Yu Zhang, 2022, ACS chemical biology.

Binding mechanism and dynamic conformational change of C subunit of PKA with different pathways

Jin Wang, Wen-Ting Chu, Xiakun Chu, 2017, Proceedings of the National Academy of Sciences.

Quantifying Chromosome Structural Reorganizations during Differentiation, Reprogramming, and Transdifferentiation.

Jin Wang, Xiakun Chu, 2022, Physical review letters.

Dynamic Conformational Change Regulates the Protein-DNA Recognition: An Investigation on Binding of a Y-Family Polymerase to Its Target DNA

Yong Wang, Jin Wang, Fei Liu, 2014, PLoS Comput. Biol..

Investigations of the underlying mechanisms of HIF-1α and CITED2 binding to TAZ1

Jin Wang, Wen-Ting Chu, Xiakun Chu, 2020, Proceedings of the National Academy of Sciences.

Investigations of the Underlying Mechanisms of HIF-1α and CITED2 Binding to TAZ1

Jin Wang, Wen-Ting Chu, Xiakun Chu, 2019, bioRxiv.

Insights into the cell fate decision-making processes from chromosome structural reorganizations.

Jin Wang, Xiakun Chu, 2022, Biophysics reviews.

Deciphering the molecular mechanism of the cancer formation by chromosome structural dynamics

Jin Wang, Xiakun Chu, 2021, bioRxiv.

Microscopic Chromosomal Structural and Dynamical Origin of Cell Differentiation and Reprogramming

X. Chu, Jin Wang, Xiakun Chu, 2020, bioRxiv.

Importance of Electrostatic Interactions in the Association of Intrinsically Disordered Histone Chaperone Chz1 and Histone H2A.Z-H2B

Yong Wang, Jin Wang, Wei Han, 2012, PLoS Comput. Biol..

Specificity and Affinity Quantification of Flexible Recognition from Underlying Energy Landscape Topography

Jin Wang, Xiakun Chu, Jin Wang, 2014, PLoS Comput. Biol..

Multiscaled exploration of coupled folding and binding of an intrinsically disordered molecular recognition element in measles virus nucleoprotein

Y. Wang, S. Longhi, S. Longhi, 2013, Proceedings of the National Academy of Sciences of the United States of America.

Quantifying the topography of the intrinsic energy landscape of flexible biomolecular recognition

Xiakun Chu, Linfeng Gan, Erkang Wang, 2013, Proceedings of the National Academy of Sciences.

Topography of funneled landscapes determines the thermodynamics and kinetics of protein folding

J. Onuchic, E. Wang, P. Whitford, 2012, Proceedings of the National Academy of Sciences of the United States of America.

Conformational state switching and pathways of chromosome dynamics in cell cycle

X. Chu, Jin Wang, Xiakun Chu, 2019, bioRxiv.

Confinement and Crowding Effects on Folding of a Multi-domain Y-family DNA Polymerase.

Z. Suo, Jin Wang, Xiakun Chu, 2020, Journal of chemical theory and computation.

Roles of conformational disorder and downhill folding in modulating protein-DNA recognition.

V. Muñoz, X. Chu, Xiakun Chu, 2017, Physical chemistry chemical physics : PCCP.

Investigating the Conformational Dynamics of a Y-Family DNA Polymerase during Its Folding and Binding to DNA and a Nucleotide

Z. Suo, Jin Wang, Xiakun Chu, 2021, JACS Au.

Uncovering the Quantitative Relationships Among Chromosome Fluctuations, Epigenetics, and Gene Expressions of Transdifferentiation on Waddington Landscape

Jin Wang, Wen-Ting Chu, Xiakun Chu, 2022, Advanced science.

Molecular Simulations of Intrinsically Disordered Proteins and Their Binding Mechanisms.

V. Muñoz, Suhani Nagpal, Xiakun Chu, 2021, Methods in molecular biology.

Molecular mechanism of multispecific recognition of Calmodulin through conformational changes

H. P. Lu, X. Chu, Fei Liu, 2017, Proceedings of the National Academy of Sciences.

Investigations of the Underlying Mechanisms of HIF-1{\alpha} and CITED2 Binding to TAZ1.

Jin Wang, Wen-Ting Chu, Xiakun Chu, 2019 .

Multidomain protein solves the folding problem by multifunnel combined landscape: theoretical investigation of a Y-family DNA polymerase.

Yong Wang, Xiakun Chu, Erkang Wang, 2012, Journal of the American Chemical Society.

Quantifying the large-scale chromosome structural dynamics during the mitosis-to-G1 phase transition of cell cycle

Jin Wang, Xiakun Chu, 2023, bioRxiv.

Insights into the molecular mechanisms of cell fate decision making processes from chromosome structural dynamics

Jin Wang, Xiakun Chu, 2021, bioRxiv.

Multi-Scaled Explorations of Binding-Induced Folding of Intrinsically Disordered Protein Inhibitor IA3 to its Target Enzyme

Yong Wang, Jin Wang, Wei Han, 2011, PLoS Comput. Biol..

Position-, disorder-, and salt-dependent diffusion in binding-coupled-folding of intrinsically disordered proteins.

X. Chu, Jin Wang, Xiakun Chu, 2019, Physical chemistry chemical physics : PCCP.

Uncovering the underlying physical mechanisms of biological systems via quantification of landscape and flux

Li Xu, Han Yan, Kun Zhang, 2016 .

Effects of electrostatic interactions on global folding and local conformational dynamics of a multidomain Y-family DNA polymerase.

Jin Wang, Q. Nie, Haibin Li, 2021, Physical chemistry chemical physics : PCCP.

Multiscaled exploration of coupled folding and binding of an intrinsically disordered molecular recognition element in measles virus nucleoprotein

Xiakun Chu, Erkang Wang, Yong Wang, 2013, Proceedings of the National Academy of Sciences.

Editorial: Advanced Sampling and Modeling in Molecular Simulations for Slow and Large-Scale Biomolecular Dynamics

Davide Mercadante, Wenfei Li, Pengfei Tian, 2021, Frontiers in Molecular Biosciences.

Supporting Information for Investigating the conformational dynamics of a Y-family DNA polymerase during its folding and binding to DNA and a nucleotide

Z. Suo, Jin Wang, Xiakun Chu, 2021 .

Electronic Supplementary Information ( ESI )

Jin Wang, Haibin Li, Xiakun Chu, 2014 .

Unraveling the Interplay between Stability and Flexibility in Design of Polyethylene Terephthalate (PET) Hydrolases

Xiakun Chu, Shiqinrui Xu, Chengze Huo, 2024, bioRxiv.

Deciphering the dynamical chromosome structural reorganizations in human neural development

Jin Wang, Xiakun Chu, Cibo Feng, 2024, Physical Review Research.

Large-scale data-driven and physics-based models offer insights into the relationships among the structures, dynamics, and functions of chromosomes

Jin Wang, Xiakun Chu, Cibo Feng, 2023, Journal of molecular cell biology.

Physics of biomolecular recognition and conformational dynamics

Li Xu, Zuojia Liu, Kun Zhang, 2021, Reports on progress in physics. Physical Society.

Fluctuating chromatin facilitates enhancer-promoter communication by regulating transcriptional clustering dynamics

Xiakun Chu, Tao Zhu, Chunhe Li, 2024, bioRxiv.

Balancing thermodynamic stability, dynamics, and kinetics in phase separation of intrinsically disordered proteins.

Xiakun Chu, Guoqing Zhang, 2024, The Journal of chemical physics.

Balancing stability, dynamics and kinetics in phase separation of intrinsically disordered proteins

Xiakun Chu, Guoqing Zhang, 2024, bioRxiv.