Tuesdays, 2:00 pm - 3:00 pm, AP&M 5829.
Date |
Speaker |
Title & Abstract |
| 4/1/08 | Organizational meeting | |
| 4/8/08 |
Dr. Benzhuo Lu
(HHMI, Chem-Biochem & CTBP, UCSD) |
Boundary integral methods for electrostatics in biomolecules.
Part I: An overview.
Abstract |
| 4/15/08 |
Prof. Jingfang Huang
(Math, UNC-Chapel Hill, & CTBP, UCSD) |
Boundary integral methods for electrostatics in biomolecules.
Part II: Fast multipole methods
Abstract |
| 4/22/08 |
Dr. Ilja Khavrutskii
(HHMI, Chem-Biochem & CTBP, UCSD) |
Transition path and path ensemble optimization with gradient-augmented
Harmonic Fourier Beads method
Abstract |
| 4/29/08 |
Prof. Doug Smith
(Phys Dept, UCSD) |
Single molecule studies of entangled DNA molecule dynamics and viral DNA packaging |
|
Special event
4:00pm, Thursday, 5/8/08, AP&M 6402. |
Prof. Herbert Levine, Phys Dept & CTBP, UCSD,
will speak in the Math Dept Colloquium.
Title: Fluctuation-Dominated Front Motion and its Application to Laboratory-Scale Darwinian Evolution |
|
| 5/13/08 |
Dr. Shachi Gosavi
(Phys Dept & CTBP, UCSD) |
Protein Folding, Topological Frustration and Biological Function
Abstract |
| 5/20/08 | Prof. Bo Li
(Math & CTBP, UCSD) |
Variational implicit-solvent modeling and the level-set computation
of biomolecular structures and interactions. Part I: An overview.
Abstract |
| 5/27/08 |
Prof. Li-Tien Cheng
(Math, UCSD) |
Variational implicit-solvent modeling and the level-set computation
of biomolecular structures and interactions. Part II: The level-set method.
Abstract |
| 6/3/08 | Dr. Yuhui Cheng | Self-cleavage reaction mechanism study in group I intron ribozyme: application of ab initio QM/MM approach |
No seminars this quarter due to the leave of one of the organizers.
Tuesdays, 3:00 pm - 4:00 pm, AP&M 5402.
Date |
Speaker |
Title & Abstract |
|
6/14/07 (special date) |
Dr. Jianwei Che (GNF) Prof. Li-Tien Cheng (Math, UCSD) |
Biochemistry and rational drug design. Level-set method. |
| 8//28/07 | Prof. Bo Li (Math & CTBP, UCSD)
Ms. Morgan Lawrenz (Biochem, UCSD) Mr. Yang Xie (MAE, UCSD) |
Level-set implicit solvent models. MD simulations of
charged xenon particles.
Bo Li's presentation PDF. Yang Xie's presentation PDF. |
| 9/25/07 | Prof. Bo Li
(Math & CTBP, UCSD) |
Electrostatic free energy and its variations in implicit solvent models
Abstract |
| 10/2/07 | Dr. Benzhuo Lu
(HHMI, and Biochem and CTBP of UCSD) |
Electrodiffusion: A continuum modeling framework for
biomolecular systems with realistic spatiotemporal resolution
Abstract |
| 10/9/07 |
Prof. Lei Ni
(Math, UCSD) |
Ricci flow
Follow-up discussion on: Geometrical flows, molecular surfaces, and protein folding. |
| 10/16/07 | Prof. Ray Luo
(Molecular Biology & Biochem, UC Irvine) |
Scaling in Solvation: Implicit Solvent vs. Explicit Solvent
Abstract |
| 10/23/07 | Cancelled due to the closure of UCSD campus. | |
| 10/30/07 |
Dr. Zeyun Yu
(Math and Biochem, UCSD) |
Molecular mesh generation and processing
Abstract |
| 11/6/07 |
Dr. Yongcheng Zhou (Biochem & Math, UCSD) |
Modeling, computation and applications of electrostatic stress of bimolecules
Abstract |
| 11/13/07 |
Prof. Gaurav Arya
(Nanoenginnering, UCSD) |
Mesoscale modeling and simulation of chromatin
Abstract |
| 11/20/07 |
Prof. Olga Dudko
(Phys Dept & CTBP, UCSD) |
Single-Molecule Pulling Experiments: Theory, Analysis and Interpretation.
Abstract |
| 11/27/07 |
Mr. Alex Bilik (Math, UCSD) |
Diffuse-interface modeling and simulation of solvation of nonpolar molecules |
| 12/4/07 | Professor Richard D. James of Univ. of Minnesota is giving a talk in Seminars in Mechanics and Materials. 11:00 - 12:00, Monday, Dec. 3, CMRR Auditorium. Title: Lessons on Structure from the Structure of Viruses. Abstract. | |