Using graph theory to analyze biological networks

GA Pavlopoulos, M Secrier, CN Moschopoulos… - BioData mining, 2011 - Springer
Understanding complex systems often requires a bottom-up analysis towards a systems
biology approach. The need to investigate a system, not only as individual components but …

Analyzing and modeling real-world phenomena with complex networks: a survey of applications

LF Costa, ON Oliveira Jr, G Travieso… - Advances in …, 2011 - Taylor & Francis
The success of new scientific areas can be assessed by their potential in contributing to new
theoretical approaches and in applications to real-world problems. Complex networks have …

What is a complex system?

J Ladyman, J Lambert, K Wiesner - European Journal for Philosophy of …, 2013 - Springer
Complex systems research is becoming ever more important in both the natural and social
sciences. It is commonly implied that there is such a thing as a complex system, different …

[KNIHA][B] Physical biology of the cell

R Phillips, J Kondev, J Theriot, H Garcia - 2012 - taylorfrancis.com
Physical Biology of the Cell is a textbook for a first course in physical biology or biophysics
for undergraduate or graduate students. It maps the huge and complex landscape of cell …

The physics of polymer chain-folding

W Hu - Physics Reports, 2018 - Elsevier
Chain-folding represents a motif configuration in lamellar polymer crystals as well as in
protein beta-sheets. This report presents a survey on our current understanding about …

Optimized PAR-2 RING dimerization mediates cooperative and selective membrane binding for robust cell polarity

T Bland, N Hirani, DC Briggs, R Rossetto, KB Ng… - The EMBO …, 2024 - embopress.org
Cell polarity networks are defined by quantitative features of their constituent feedback
circuits, which must be tuned to enable robust and stable polarization, while also ensuring …

Carnot cycle at finite power: attainability of maximal efficiency

AE Allahverdyan, KV Hovhannisyan, AV Melkikh… - Physical review …, 2013 - APS
We want to understand whether and to what extent the maximal (Carnot) efficiency for heat
engines can be reached at a finite power. To this end we generalize the Carnot cycle so that …

Conditional cooperativity in toxin–antitoxin regulation prevents random toxin activation and promotes fast translational recovery

I Cataudella, A Trusina, K Sneppen… - Nucleic acids …, 2012 - academic.oup.com
Many toxin–antitoxin (TA) loci are known to strongly repress their own transcription. This
auto-inhibition is often called 'conditional cooperativity'as it relies on cooperative binding of …

Nonlinear electrostatics: the Poisson–Boltzmann equation

CG Gray, PJ Stiles - European Journal of Physics, 2018 - iopscience.iop.org
The description of a conducting medium in thermal equilibrium, such as an electrolyte
solution or a plasma, involves nonlinear electrostatics, a subject rarely discussed in the …

Polymers under confinement: single polymers, how they interact, and as model chromosomes

BY Ha, Y Jung - Soft Matter, 2015 - pubs.rsc.org
How confinement or a physical constraint modifies polymer chains is not only a classical
problem in polymer physics but also relevant in a variety of contexts such as single-molecule …