Gopinathan Group Home Page

npc copolymer brush structure



Our research focuses on a variety of problems in the general areas of biophysics, and soft condensed matter

A major research theme in our group is understanding transport in both biological and physical systems.

At some level, one can argue that Life IS Motion - whether it is molecules shuttling around cells or flocks of birds in the skies. We study transport- at levels ranging from the molecular to ecosystem with the appropriate theoretical and computational tools at each level of organization. 

While our research spans a diverse range of systems, the questions we ask are general and cut across scales. Transport in biological systems is achieved against tremendous odds in complex, dynamic and noisy environments but with incredibly high fidelity. We are interested in figuring out how the laws of Physics are exploited to allow this.

How does the structure and dynamics of the environment and interactions among cargo themselves give rise to emergent transport phenomena at higher levels of organization? How does reliability and robustness of transport arise in these contexts with high molecular noise? 

Can we use our insights into these questions to control or optimize transport or even mimic it artificially?

Addressing these questions requires integrating information across different scales of biological organization and we use theoretical and computational techniques from a variety of areas in soft matter and statistical mechanics. Specific techniques we use include all-atom molecular dynamics simulations; coarse grained Brownian dynamics; Monte Carlo simulations; agent based models as well as analytical theory based on polymer physics and elasticity.

Specific problems we address include molecular motor-based intracellular transport and associated cytoskeletal structure and dynamics, disordered proteins and biopolymers, bacterial division and growth and anomalous transport and non-equilibrium dynamics in a variety of biological and physical systems. 

Our group is affiliated with the following graduate groups: Quantitative and Systems Biology,BioengineeringMechanical Engineering and Applied Mechanics and Physics.

Project pages: Biological Transport in Complex Environments(JSMF)    Stochastic Transport Across Scales(NSF)


David Ando's paper on cooperative proto-filament switching in multiple-kinesin transport appears in Scientific Reports (December 2014)

Nori's paper on optimal cooperative foraging appears in the Journal of Theoretical Biology (August 2014)

Ajay Gopinathan has been named a Scialog Fellow by the Research Corporation and Gordon & Betty Moore Foundation (July 2014)

Our paper on the copolymer brush structure and function of the nuclear pore appears in Biophysical Journal (May 2014)

David Quint accepts a postdoctoral position offer from Stanford University and the Carnegie Institute (April 2014)

David Ando wins a Graduate Dean's Dissertation Year Award (April 2014)! Congrats David!

Robby Puccinelli wins the SNS Outstanding Undergraduate Student Award and the UCM Research Week Best Poster Award (March 2014)!! Congrats Robby

David Quint gives an invited talk at Symposium on " Collective Motion Across Scales" at the American Physical Society March meeting in Denver.

We are organizing an invited session on "Collective motion across scales: From Proteins to Animals" atAPS March Meeting 2014 in Denver

David Ando's paper on the "physical bioinformatics" of disordered nucleoporin sequences published in PLoS ONE

Former postdoc Nickolay Korabel started a new postdoctoral position at the University of Manchester (Sep.2013)

Former postdoc Konstantinos Tsekouras started a visiting faculty position at Indiana/Purdue University (August 2013)

Kostas Tsekouras's  paper on designing nanocarriers for high specificity cancer therapeutics published in PLoS ONE

We are organizing a workshop at the Aspen Center for Physics on - "Functional Biological Assemblies" - May 27-June 30, 2013

Grad student Katie Copenhagen joins the group. Welcome Katie!

Work on the mechanism of FtsZ ring force generation is published in PNAS

Amanda Miguel is going to Stanford Bioengineering for grad school! Congrats Amanda!

Alan Blatt is going to UC Irvine Physics for grad school on a Chancellor's Felloship. Congrats Alan!

Postdoc David Quint joins the group                                  Postdoc Nickolay Korabel joins the group

Postdoc Kostas Tsekouras joins the group                        Physical Review Focus story on Igor's PRL

We win an NSF-Advancing Theory in Biology grant           Igor obtains his Ph.D!

We win the 2010 George E. Brown, Jr. Award                  AG wins a James S. McDonnell Foundation Award

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