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John S. M
C
Caskill
INFORMATION, NANO and MICROSYSTEMS, EVOLUTION 2004-2017
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BioMIP
Research
Molecular Information Processing
Synthetic systems self-organization
Chemical System Evolution
mprDPD - mesoscale simulation
Motivation
Method
Applications
EvoSelf - evolving amphiphilic systems
Model
Widom lattice model statistical mechanics
Amphiphile phases in Widom model
Combinatorial amphiphiles control multiphase system
Interface for evolving amphiphile self-assembly
GSA - Genetic Self-assembly
EvoCPU - algorithm self-assembly
Motivation
Micro-controllers and molecules
Reducing micro-controller complexity
Structured programming
The consequences
A molecular micro-controller
Programming such systems
KRD - systems kinetic RD
PRESS - stochastic spatial kinetics
Motivation
PRESS approach
Simulations with PRESS
Microsystems Chemistry
Microsystem Construction
FPFA concepts
FPFA silicon based electrode-layer design and fabrication
Polyimide based electrode layer
Soft-lithography and assembly
Integrated experimental platform
Projects (at RUB)
PACE
Artificial Cells in PACE
Evolutionary Self-assembly
Microfluidic complementation systems
The omega machine
Hepatosys
Mesoscale systems simulation
Protein sorting
Collaboration partners
ECCell
MATCHIT
COBRA
Roadmap
CADMAD
Publications-BioMIP-CADMAD
MICREAgents
Publications
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2008
2007
2006
2005
2004 (RUB)
1977-2006
Patents
Teaching
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Hepatosys
Mesoscale systems simulation
Protein sorting
Collaboration partners
RUB Context
BioMIP Research Group
Fac. Chemistry and Biochemistry
Ruhr-Universität Bochum
International Activities
EON Seed Grant
MICREAgents Project
Eur. Centre Living Technology
TRUCE CA- Unconventional Computing
COST Action Systems Chemistry (2014-17)
Recent Projects
COBRA CA Biochem_IT (2011-2014)
CADMAD Project (FP7 2011-2014)
MATCHIT (FP7 2009-12)
COST Systems Chemistry (2008-14)
ECCell Project (FP7 2008-12)
HepatoSys Project (BMBF 2004-10)
PACE Project (FP6 2004-8)
SPLiT (proposed ICT Flagship 2010)
Protein sorting
a hierarchy of successively simpler Heinrich models
combinatorially complex sorting
DPD model with explicit compartments
spatially resolved Heinrich model
stochastic diffusive Heinrich models
Reference
Generation of nonidentical compartments in vesicular transport systems -- Heinrich and Rapoport (2005) J. Cell Biol. 168 271
heinrich 4 XY csize 4 ves antisym norm
The structured mathematica notebook is readable as a web page below
Original Heinrich Model
RUB 2015. Copyright 2007-2013. All rights reserved. Web managers:
J. S. McCaskill
, T. Maeke.
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