Research Groups

Portrait Carl Modes

Carl Modes

Network Complexity and Systems Biophysics

Previous and Current Research

Despite their critical importance in the modern world, most prior research into the properties of complex networks has been done in an abstract setting, with characterizing quantities developed from topology limited entirely to generic networks. The major impediment to a deeper understanding of real biological distribution and functional networks has been that the promotion of simpler-to-understand two-dimensional networks, as in plant leaves, to fully realized three-dimensional complex systems, such as human vasculature or extended root networks, is fundamentally non-trivial. Yet there have been no appropriate quantitative tools to characterize vasculature in a physically relevant mathematically compact way; this characterization is a necessary prerequisite to the development of predictive models for the effects of vascular network architecture and topology.

In order to fill this void, we have developed a classification algorithm that generalizes functional two-dimensional network characterization to a fully three-dimensional setting, applicable to many problems across all kinds of real distribution networks. This new algorithm can distinguish networks architectures and capacity arrangements that originated in subtly different ways and has the potential to teach us a great deal about many critical and widely varied complex networks, from the function and vascular-associated disfunction of mammalian neurovasculature to the complexly interwoven bile canaliculi in the liver to stress and load-bearing network structures in biofilms and more.

We have also been at the forefront of recent advances in shape programmable soft materials, playing a central role  in the invention and development of thin sheet nematic solid systems that can be “blueprinted” with pre-determined nematic director fields that give rise to externally switchable, reversible shape change, potentially at the sub-micron scale. These systems lend themselves to a panoply of device design opportunities relevant to systems biology, biophysics, and medical applications, including soft robotics, drug delivery and encapsulation methods, peristaltic pumps and gateway switching for lab-on-a-chip and soft microfluidics. Furthermore, the theory and methods underlying these shape programmable materials may serve as a powerful model for complex shape determination in developing biological systems as well.

Carl Modes research: movie
Future Projects and Goals

Our group seeks to leverage principles and methods of applied topology and geometry in order to better understand complex biological phenomena, with a particular focus on the role of network complexity in these systems. Some future projects include:

  • The development of diagnostic capabilities from analytical signatures in the network structure of organ vasculature, especially in the brain    
  • Probing how complex vascular networks arise during developmental stages, where the architectural topology may be more rudimentary but function must be maintained
  • Studying the ability of such networks to dynamically adapt to changing local or global conditions, such as stroke-induced wounds in a neurovascular network
  • Refinement and expansion of our complex network characteristic tools for use in relational and -omic networks
  • Modeling and optimizing mycorrhizal networks, wherein plant-fungal symbiosis allows for the creation of huge, complex, second-order root networks in many plant species, including nearly all crops
  • Extension of the theory and methods of soft shape-programmability to model complex shape determination in developing organisms, particularly through non-trivial application of patterned, uniaxial deformations
Methodological and Technical Expertise
  • Theory of complex networks
  • Applied topological and geometric methods
  • Theoretical biophysics
  • Theory of soft matter
  • Numerical methods and simulations
Selected Publications

C.D. Modes, M.O. Magnasco, E. Katifori
Extracting Hidden Hierarchies in 3D Distribution Networks
Phys. Rev. X 6 031009 (2016)

C. D. Modes, M. Warner
Shape-programmable Materials
Physics Today 69(1) 32 (2016)

C. D. Modes, M. Warner
Blueprinting Nematic Glass: Systematically Constructing and Combining Active Points of Curvature for Emergent Morphology
Phys. Rev. E 84 021711 (2011)

J. Grawer, C. D. Modes, M. O. Magnasco, E. Katifori
Structural Self-Assembly and Avalanchelike Dynamics in Locally Adaptive Networks
Phys. Rev. E 92 012801 (2015)

CV

since 2017
Research Group Leader, MPI-CBG and CSBD, Dresden, Germany

2011–2017
Post doctoral work at the Center for Studies in Physics and Biology, The Rockefeller University, New York, NY, United States

2008–2011
Post doctoral work at the Cavendish Laboratory, University of Cambridge, Cambridge, UK

2002–2008
PhD, Soft Condensed Matter Physics, Department of Physics and Astronomy, University of Pennsylvania, Philadelphia, PA, United States

1998–2002
AB, Physics, Department of Physics, Princeton University, Princeton, NJ, United States

Contact

Center for Systems Biology Dresden
Pfotenhauerstraße 108
01307 Dresden
Germany

Intranet