Related papers: Metabolic networks are almost nonfractal: A compre…
The fractal nature of complex networks has received a great deal of research interest in the last two decades. Similarly to geometric fractals, the fractality of networks can also be defined with the so-called box-covering method. A network…
Despite their topological complexity almost all functional properties of metabolic networks can be derived from steady-state dynamics. Indeed, many theoretical investigations (like flux-balance analysis) rely on extracting function from…
Analysis and modeling of networked objects are fundamental pieces of modern data mining. Most real-world networks, from biological to social ones, are known to have common structural properties. These properties allow us to model the growth…
Metabolism is a fascinating cell machinery underlying life and disease and genome-scale reconstructions provide us with a captivating view of its complexity. However, deciphering the relationship between metabolic structure and function…
In a cell or microorganism the processes that generate mass, energy, information transfer, and cell fate specification are seamlessly integrated through a complex network of various cellular constituents and reactions. However, despite the…
The fractal and self-similarity properties are revealed in many real complex networks. However, the classical information dimension of complex networks is not practical for real complex networks. In this paper, a new information dimension…
Exploring the structural topology of genome-based large-scale metabolic network is essential for investigating possible relations between structure and functionality. Visualization would be helpful for obtaining immediate information about…
Self-similarity is a property of fractal structures, a concept introduced by Mandelbrot and one of the fundamental mathematical results of the 20th century. The importance of fractal geometry stems from the fact that these structures were…
Accurately determining and classifying the structure of complex networks is the focus of much current research. One class of network of particular interest are metabolic pathways, which have previously been studied from a graph theoretical…
The large-scale shape and function of metabolic networks are intriguing topics of systems biology. Such networks are on one hand commonly regarded as modular (i.e. built by a number of relatively independent subsystems), but on the other…
The metabolic networks are very well characterized for a large set of organisms, a unique case in within the large-scale biological networks. For this reason they provide a a very interesting framework for the construction of analytically…
[Background] Several studies have mentioned network modularity -- that a network can easily be decomposed into subgraphs that are densely connected within and weakly connected between each other -- as a factor affecting metabolic…
Complex networks from such different fields as biology, technology or sociology share similar organization principles. The possibility of a unique growth mechanism promises to uncover universal origins of collective behaviour. In…
Many methods have been developed for finding the commonalities between different organisms to study their phylogeny. The structure of metabolic networks also reveal valuable insights into metabolic capacity of species as well as into the…
In many real complex networks, the fractal and self-similarity properties have been found. The fractal dimension is a useful method to describe fractal property of complex networks. Fractal analysis is inadequate if only taking one fractal…
The fractal nature of graphs has traditionally been investigated by using the nodes of networks as the basic units. Here, instead, we propose to concentrate on the graph edges, and introduce a practical and computationally not demanding…
In this paper, we pose a hypothesis that the structure of communities in complex networks may result from their latent fractal properties. This hypothesis is based not only on the general observation that many real networks have multilevel…
Topological properties of "scale-free" networks are investigated by determining their spectral dimensions $d_S$, which reflect a diffusion process in the corresponding graphs. Data bases for citation networks and metabolic networks together…
High-throughput techniques are leading to an explosive growth in the size of biological databases and creating the opportunity to revolutionize our understanding of life and disease. Interpretation of these data remains, however, a major…
In this paper we study self-similar and fractal networks from the combinatorial perspective. We establish analogues of topological (Lebesgue) and fractal (Hausdorff) dimensions for graphs and demonstrate that they are naturally related to…