Institute for Molecular Science, Japan
Work Email: zhiyetang[at]ims.ac.jp
Personal Email: ztang006[at]ucr.edu
Assistant Professor
Theoretical and Computational Molecular Science, Theoretical Molecular Science I
Institute for Molecular Science, Japan
April 2022-Present
Project Assistant Professor
Okazaki Group Itoh Lab, Department of Advanced Material Science
Tokyo University, Japan
April 2020-March 2022
Postdoctoral Researcher
Okazaki Lab, Graduate School of Engineering
Nagoya University, Japan
Jan 2018-March 2020
Postdoctoral Researcher
Chang Lab, Chemistry Department
University of California, Riverside, US
Sept 2016-Dec 2017
University of California, Riverside, USA
September 2011-August 2016
Wuhan University, China
September 2007-June 2011
Substitute Lecturer (General Chemistry A)
University of California Riverside, Riverside, CA, US, 2017
Teaching Assistant (General Chemistry A, B, C)
University of California Riverside, Riverside, CA, US, 2015-2016
Teaching Assistant (General Chemistry Laboratory A, B, C)
University of California Riverside, Riverside, CA, US, 2012-2014
Invited Lecturer
Computational Chemistry and Biology Workshop, Riverside, CA, US, 2013, 2016, 2017
Molecular/Brownian Dynamics: Gromacs, Lammps, AMBER, NAMD, Metadynamics, GaMD, GeomBD, NAM
Conformational Search/Docking: Autodock, Autodock Vina, VDock, Mining Minima 2
Protonation State Determination: MCCE, ProPKa, DelPhiPKa
Free Energy Calculation: Umbrella Sampling (WHAM), Milestoning
Visualization and Modeling: Vega ZZ, Avogadro, VMD, PyMol
Database: Cambridge Crystallographic Data Centre, PDB Data Bank, Pfam
Others: In House Packages, Personal Analysis Library and Tools
Proficient: C/C++, VC, VC#, Fortran, Basic, Mathematica, Direct X, Intel MKL Library, openMP, openMPI, SIMD, LaPACK, ScaLAPACK
Sufficient: PERL, PYTHON, R, Cuda
Molecular Dynamics File IO: Topology (Gromacs, amber, namd, lammps format), Trajectories (DCD, MDCRD, TRR, PDB, GRO, etc.)
Trajectory Format Conversion
Easy Script Templating
Basic Analysis Scripts: RMSD, RMSF, Hydrogen bond, Geometry, etc.
Flexible Atom Selection: resemble that in VMD
Energy Calculation: PME + SIMD + reproduced Verlet algorithm used in Gromacs
Minimization: steepest decent, l-bfgs
Internal Coordinate Conversion
Polymer Preparation: adjustments of entanglements and radius of gyration
Figure Generation: exporting data to BMP file
Principal Component Analysis: Cartesian and Dihedral versions
Data Fitting
Microsoft Office, 3DS MAX, PHOTOSHOP
Fluent in
English
Mandarin Chinese
Japanese
Cantonese
Learning in progress
French
Last Update: Jan 16, 2023