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How morphogenesis depends on cell properties is an active direction of research. Here, we focus on mechanical models of growing plant tissues, where microscopic (sub)cellular structure is taken into account. In order to establish links…
We show analytically that abrupt structural transitions can arise in functionally optimal networks, driven by small changes in the level of transport congestion. Our findings are based on an exactly solvable model system which mimics a…
We study the emerging large-scale structures in networks subject to selective pressures that simultaneously drive towards higher modularity and robustness against random failures. We construct maximum-entropy null models that isolate the…
Interconnected ensembles of biological entities are perhaps some of the most complex systems that modern science has encountered so far. In particular, scientists have concentrated on understanding how the complexity of the interacting…
We investigate the application of mesoscopic response functions (MRFs) to characterize a large set of networks of fungi and slime moulds grown under a wide variety of different experimental treatments, including inter-species competition…
Networks in nature are often formed within a spatial domain in a dynamical manner, gaining links and nodes as they develop over time. We propose a class of spatially-based growing network models and investigate the relationship between the…
Reinforced elastic sheets surround us in daily life, from concrete shell buildings to biological structures such as the arthropod exoskeleton or the venation network of dicotyledonous plant leaves. Natural structures are often highly…
Many biological systems approach physical limits to their performance, motivating the idea that their behavior and underlying mechanisms could be determined by such optimality. Nevertheless, optimization as a predictive principle has only…
The organization of interactions in complex systems can be described by networks connecting different units. These graphs are useful representations of the local and global complexity of the underlying systems. The origin of their…
In this paper we present a network model to study the impact of spatial distribution of constituents, coupling between them and diffusive processes in the context of biological situations. The model is in terms of network of mobile elements…
Spatial self-organization emerges in distributed systems exhibiting local interactions when nonlinearities and the appropriate propagation of signals are at work. These kinds of phenomena can be modeled with different frameworks, typically…
Understanding how living organisms spontaneously develop complex functional structures inspires innovative approaches in engineering design. Here, we introduce a decentralized generative model based on morphogenesis to autonomously grow…
Understanding the rules underlying organismal development is a major unsolved problem in biology. Each cell in a developing organism responds to signals in its local environment by dividing, excreting, consuming, or reorganizing, yet how…
The conformation space of a 20-residue antiparallel $\beta$-sheet peptide, sampled by molecular dynamics simulations, is mapped to a network. Conformations are nodes of the network, and the transitions between them are links. The…
The changing topology of a network is driven by the need to maintain or optimize network function. As this function is often related to moving quantities such as traffic, information, etc. efficiently through the network the structure of…
The functional features of spatial networks depend upon a non-trivial relationship between the topological and physical structure. Here, we explore that relationship for spatial networks with radial symmetry and disordered fractal…
Numerous networks, such as transportation, distribution and delivery networks optimize their designs in order to increase efficiency and lower costs, improving the stability of its intended functions, etc. Networks that distribute goods,…
Merging models fine-tuned for different tasks into a single unified model has become an increasingly important direction for building versatile, efficient multi-task systems. Existing approaches predominantly rely on parameter interpolation…
Bacteria and their bacteriophages are the most abundant, widespread and diverse groups of biological entities on the planet. In an attempt to understand how the interactions between bacteria, virulent phages and temperate phages might…
Morphoelasticity represents a foundational theory for tracing back growth, remodelling, and morphogenesis, yet crucial challenges persist. A unified growth law -- independent of a priori assumptions about constitutive relations or specified…