Efficient Implementation of the Truncated-Newton Algorithm for Large-Scale Chemistry Applications. - Dexuan Xie; Tamar Schlick (SIAM J. Optim., 1999)

New Parallel SOR Method by Domain Partitioning. - Dexuan Xie; Loyce Adams (SIAM J. Sci. Comput., 1999)

Remark on Algorithm 702 - the updated truncated Newton minimization package. - Dexuan Xie; Tamar Schlick (ACM Trans. Math. Softw., 1999)

An Efficient Projection Protocol for Chemical Databases: Singular Value Decomposition Combined with Truncated-Newton Minimization. - Dexuan Xie; Alexander Tropsha; Tamar Schlick (J. Chem. Inf. Comput. Sci., 2000)

A More Lenient Stopping Rule for Line Search Algorithms. - Dexuan Xie; Tamar Schlick (Optim. Methods Softw., 2002)

Principal component analysis combined with truncated-Newton minimization for dimensionality reduction of chemical databases. - Dexuan Xie; Suresh B. Singh; Eugene M. Fluder (Math. Program., 2003)

An Effective Compressed Sparse Preconditioner for Large Scale Biomolecular Simulations. - Dexuan Xie (CIS, 2004)

New Block Parallel SOR Methods by Multi-type Partitions. - Dexuan Xie (ICPP Workshops, 2004)

A New Block Parallel SOR Method and Its Analysis. - Dexuan Xie (SIAM J. Sci. Comput., 2006)

An incomplete Hessian Newton minimization method and its application in a chemical database problem. - Dexuan Xie; Qin Ni (Comput. Optim. Appl., 2009)

New parallel symmetric SOR preconditioners by multi-type partitioning. - Dexuan Xie (Int. J. Comput. Math., 2009)

An improved algorithm and its parallel implementation for solving a general blood-tissue transport and metabolism model. - Dexuan Xie; Ranjan K. Dash; Daniel A. Beard (J. Comput. Phys., 2009)

Convergence analysis of truncated incomplete Hessian Newton minimization method and application in biomolecular potential energy minimization. - Dexuan Xie; Mazen G. Zarrouk (Comput. Optim. Appl., 2011)

An improved approximate Newton method for implicit Runge-Kutta formulas. - Dexuan Xie (J. Comput. Appl. Math., 2011)

A Fast Solver for a Nonlocal Dielectric Continuum Model. - Dexuan Xie; Yi Jiang; Peter R. Brune; L. Ridgway Scott (SIAM J. Sci. Comput., 2012)

Efficient Algorithms for a Nonlocal Dielectric Model for Protein in Ionic Solvent. - Dexuan Xie; Yi Jiang; L. Ridgway Scott (SIAM J. Sci. Comput., 2013)

New solution decomposition and minimization schemes for Poisson-Boltzmann equation in calculation of biomolecular electrostatics. - Dexuan Xie (J. Comput. Phys., 2014)

A new finite element and finite difference hybrid method for computing electrostatics of ionic solvated biomolecule. - Jinyong Ying; Dexuan Xie (J. Comput. Phys., 2015)

A new box iterative method for a class of nonlinear interface problems with application in solving Poisson-Boltzmann equation. - Dexuan Xie; Jinyong Ying (J. Comput. Appl. Math., 2016)

A nonlocal modified Poisson-Boltzmann equation and finite element solver for computing electrostatics of biomolecules. - Dexuan Xie; Yi Jiang (J. Comput. Phys., 2016)

SMPBS: Web server for computing biomolecular electrostatics using finite element solvers of size modified Poisson-Boltzmann equation. - Yang Xie; Jinyong Ying; Dexuan Xie (J. Comput. Chem., 2017)

Series solution of a nonlocal dielectric test model for a solute ball with point charges in an ionic solvent. - Hans Volkmer; Dexuan Xie (Commun. Inf. Syst., 2018)

Study of local and nonlocal Poisson-Boltzmann equations for linear and nonlinear models with spherical symmetry. - Hans Volkmer; Dexuan Xie (J. Comput. Appl. Math., 2019)

Preconditioners for nonsymmetric indefinite linear systems. - Zhen Chao; Dexuan Xie; Ahmed H. Sameh (J. Comput. Appl. Math., 2020)

A size-modified poisson-boltzmann ion channel model in a solvent of multiple ionic species: Application to voltage-dependent anion channel. - Dexuan Xie; Said H. Audi; Ranjan K. Dash (J. Comput. Chem., 2020)

A finite element iterative solver for a PNP ion channel model with Neumann boundary condition and membrane surface charge. - Dexuan Xie; Zhen Chao (J. Comput. Phys., 2020)

An Effective Finite Element Iterative Solver for a Poisson-Nernst-Planck Ion Channel Model with Periodic Boundary Conditions. - Dexuan Xie; Benzhuo Lu (SIAM J. Sci. Comput., 2020)

A Rapid, Accurate and Machine-Agnostic Segmentation and Quantification Method for CT-Based COVID-19 Diagnosis. - Longxi Zhou; Zhongxiao Li; Juexiao Zhou; Haoyang Li; Yupeng Chen; Yuxin Huang; Dexuan Xie; Lintao Zhao; Ming Fan 003; Shahrukh Hashmi; Faisal Abdelkareem; Riham Eiada; et al. (IEEE Trans. Medical Imaging, 2020)

Cover Image. - Zhen Chao; Dexuan Xie (J. Comput. Chem., 2021)

An improved Poisson-Nernst-Planck ion channel model and numerical studies on effects of boundary conditions, membrane charges, and bulk concentrations. - Zhen Chao; Dexuan Xie (J. Comput. Chem., 2021)

Efficient Generation of Membrane and Solvent Tetrahedral Meshes for Ion Channel Finite Element Calculation. - Zhen Chao; Sheng Gui; Benzhuo Lu; Dexuan Xie (CoRR, 2022)

An efficient finite element iterative method for solving a nonuniform size modified Poisson-Boltzmann ion channel model. - Dexuan Xie (J. Comput. Phys., 2022)

An interpretable deep learning workflow for discovering subvisual abnormalities in CT scans of COVID-19 inpatients and survivors. - Longxi Zhou; Xianglin Meng; Yuxin Huang; Kai Kang; Juexiao Zhou; Yuetan Chu; Haoyang Li; Dexuan Xie; Jiannan Zhang; Weizhen Yang; Na Bai; Yi Zhao; et al. (Nat. Mach. Intell., 2022)

A Poisson-Nernst-Planck single ion channel model and its effective finite element solver. - Dexuan Xie; Zhen Chao (J. Comput. Phys., 2023)

Deep learning-driven pulmonary arteries and veins segmentation reveals demography-associated pulmonary vasculature anatomy. - Yuetan Chu; Gongning Luo; Longxi Zhou; Shaodong Cao; Guolin Ma; Xianglin Meng; Juexiao Zhou; Changchun Yang; Dexuan Xie; Ricardo Henao; Xigang Xiao; Lianming Wu; et al. (CoRR, 2024)

An efficient finite element solver for a nonuniform size-modified Poisson-Nernst-Planck ion channel model. - Dexuan Xie (J. Comput. Phys., 2024)

A PNP ion channel deep learning solver with local neural network and finite element input data. - Hwi Lee; Zhen Chao; Harris Cobb; Yingjie Liu; Dexuan Xie (Mach. Learn. Sci. Technol., 2024)

VDAC Solvation Free Energy Calculation by a Nonuniform Size Modified Poisson-Boltzmann Ion Channel Model. - Liam Jemison; Matthew Stahl; Ranjan K. Dash; Dexuan Xie (J. Comput. Chem., 2025)

A Nonlocal size modified Poisson-Boltzmann Model and Its Finite Element Solver for Protein in Multi-Species Ionic Solution. - Dexuan Xie; Liam Jemison; Yi Jiang (CoRR, 2025)