Thursdays, 2:00 pm - 3:00 pm, AP&M 5829.
Date |
Speaker |
Title & Abstract |
| 10/1/09 | Organizational meeting. | |
| 10/8/09 |
Prof. Bin Dong
(Math, UCSD) |
Applications of PDEs and optimization in medical image and surface processing.
Abstract. |
| 10/15/09 |
Dr. Yohichi Suzuki
(Phys & CTBP, UCSD) |
Single-molecule rupture dynamics on multidimensional landscapes.
Abstract. |
| 10/22/09 |
Dr. Eunjung Kim
(Math, Univ. Notre Dame) |
Multiscale biomechanical models for biological soft tissue.
Abstract. |
| 10/29/09 |
Mr. Bo Hu
(Phys. & CTBP, UCSD) |
Stochastic information processing and optimal design in eukaryotic chemotaxis.
Abstract. |
| 11/5/09 |
Dr. Arijit Maitra
(Nanoengineer., UCSD) |
A model of dynamic single-molecule force spectroscopy that harnesses both loading rates and device stiffness.
Abstract. |
| 11/12/09 |
Dr. Immanuel Kalcher
(Biophys, Tech Univ Munich) |
Modeling ion-specific correlations in bulk and confinement
Abstract. |
| 11/19/09 | No seminar. Group meeting. | |
| 11/26/09 | No seminar. Thanksgiving Holiday. | |
| 12/3/09 |
Dr. Shuangliang Zhao
(Chem. Eng., UC Riverside) |
TBA
|
Tuesdays, 2:00 pm - 3:00 pm, AP&M 5829.
Date |
Speaker |
Title & Abstract |
| 3/31/09 | Organizational meeting. | |
|
4:00pm, Thursday, 4/9/09
AP&M 6402. (Special time & place) |
Prof. Eric Cances, Ecole des Ponts ParisTech, France,
will speak in the Math Dept Colloquium.
Title: Some mathematical aspects of Density Functional Theory. Abstract. |
|
| 4/14/09 |
Prof. Leonard M. Sander
(Phys., Univ. of Michigan) |
A generalized Cahn-Hilliard equation for biological applications
Abstract. |
| 4/21/09 | No seminar. One of the organizers is out of town. | |
| 4/28/09 |
Prof. Huan-Xiang Zhou
(Biophys., Florida State Univ.) |
Accurate calculation of binding and folding free energies by a scaled generalized Born method
Abstract. |
| 5/5/09 | Group meeting. | |
| 5/12/09 | No seminar and group meeting this week. | |
| 5/19/09 | Group meeting. | |
| 5/26/09 | No seminar and group meeting this week. | |
|
3:00, 6/3/09, EBU-II 479
(Special time & place) |
Penner Biomechanics Seminar, Mechanical and Aerospace Engineering Department, UCSD.
Speaker: Professor Alex Mogilner, UC Davis. Title: How actin treadmill, membrane tension and myosin contraction determine cell shape? |
|
Tuesdays, 2:00 pm - 3:00 pm, AP&M 5829.
Date |
Speaker |
Title & Abstract |
| 1/6/09 | Organizational meeting. | |
|
4:00, Thursday,
1/15/09, AP&M 6402. (Special time & place) |
Prof. Gil Ariel, Univeristy of Texas at Austin, will give a mathematics colloquium talk.
Title: Modeling and computation with multiple time scales. Abstract |
|
|
3:00, Thursday,
1/22/09, AP&M 5829. (Special time) |
Dr. Piotr Setny
(Biophys., Univ. of Warsaw) |
Hydrophobic effects in vicinity of concave nanoscopic objects
Abstract |
| 1/27/09 |
Dr. Zhongming Wang
(Biochem & Math, UCSD) |
A level-set variational implicit-solvent approach to hydrophobic interactions
Abstract |
| 2/3/09 |
Prof. Bo Li
(Math & |
The Poisson-Boltzmann theory of continuum electrostatics with application
to variational solvation of molecules
Abstract |
|
11:00, Tuesday,
2/10/09, AP&M 2402 (Special time & place) |
Professor Ridgway Scott, Univ. of Chicago, speaks at Numerial Analysis/Computational Math seminar. Title: Mathematical foundation for molecular van der Waals forces | |
| 2/17/09 |
Dr. Joanna Sulkowska
(Phys. & CTBP, UCSD) |
Dodging the crisis of folding proteins with knot |
|
2:00,
Thursday,
2/26/09, AP&M 5829 (Special time) |
Dr. Yangjin Kim
(Math. Biosci. Inst., Ohio State Univ.) |
Glioma invasion and microenvironment : a PDE/multiscale model
Abstract |
|
1:00, Friday,
3/6/09, Pacific Hall 3500 (Special time & place) |
Professor John Lowengrub, Department of Mathematics, UC Irvine,
speaks at the Center for Theoretical Biological Physics Seminar.
Title: Multiscale models of solid tumor growth and angiogenesis |
|
Tuesdays, 2:00 pm - 3:00 pm, AP&M 5829.
Date |
Speaker |
Title & Abstract |
| 9/30/08 | Organizational meeting. | |
|
1:00 pm, Firday
10/10/08 Pacific Hall 3500 (Special time & place) |
Prof. Bo Li will give a talk
at
Center for Theoretical Biological Physics.
Title: Coupling the level-set method with variational implicit-solvent models for molecular solvation. |
|
| 10/14/08 |
Dr. Mathias Buenemann
(Biophys., UCSD) |
Mechanical limits of viral capsids
Abstract |
| 10/21/08 | No meeting this week. (One of the organizers is away this week.) | |
|
2:00pm, Thursday, 10/30/08
(Special date) |
Prof. Paul Atzberger
(Math, UCSB) |
Spatially adaptive stochastic numerical methods
for intrinsic fluctuations in reaction-diffusion system
Abstract |
| 11/4/08 | No seminar. Organizers will participate in a workshop at the IMA (Institute for Mathematics and Its Applications). | |
| 11/11/08 | No seminar. Verterans Day Holiday. | |
| 11/18/08 |
Dr. Zhongming Wang
(Math & Biochem, UCSD) |
Solutions to a model Poisson-Nernst-Planck system and the determination of reaction rates |
| 11/25/08 |
Dr. Igor Klep
(Math, UCSD) |
Sign patterns and determinant expansions for chemical rection networks
Abstract |
| 12/2/08 | No meeting this week. (One of the organizers is away this week.) | |
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
(Biochem, UCSD) |
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 | Seminar 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 |
|
Special event
12/3/2007 |
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. | |