Generative models of the human connectome

The human connectome represents a network map of the brain's wiring diagram and the pattern into which its connections are organized is thought to play an important role in cognitive function. The generative rules that shape the topology of the human connectome remain incompletely understood. Earlier work in model organisms has suggested that wiring rules based on geometric relationships (distance) can account for many but likely not all topological features. Here we systematically explore a family of generative models of the human connectome that yield synthetic networks designed according to different wiring rules combining geometric and a broad range of topological factors. We find that a combination of geometric constraints with a homophilic attachment mechanism can create synthetic networks that closely match many topological characteristics of individual human connectomes, including features that were not included in the optimization of the generative model itself. We use these models to investigate a lifespan dataset and show that, with age, the model parameters undergo progressive changes, suggesting a rebalancing of the generative factors underlying the connectome across the lifespan.Comment: 38 pages, 5 figures + 19 supplemental figures, 1 tabl

Asymmetries arising from the space-filling nature of vascular networks

Cardiovascular networks span the body by branching across many generations of vessels. The resulting structure delivers blood over long distances to supply all cells with oxygen via the relatively short-range process of diffusion at the capillary level. The structural features of the network that accomplish this density and ubiquity of capillaries are often called space-filling. There are multiple strategies to fill a space, but some strategies do not lead to biologically adaptive structures by requiring too much construction material or space, delivering resources too slowly, or using too much power to move blood through the system. We empirically measure the structure of real networks (18 humans and 1 mouse) and compare these observations with predictions of model networks that are space-filling and constrained by a few guiding biological principles. We devise a numerical method that enables the investigation of space-filling strategies and determination of which biological principles influence network structure. Optimization for only a single principle creates unrealistic networks that represent an extreme limit of the possible structures that could be observed in nature. We first study these extreme limits for two competing principles, minimal total material and minimal path lengths. We combine these two principles and enforce various thresholds for balance in the network hierarchy, which provides a novel approach that highlights the trade-offs faced by biological networks and yields predictions that better match our empirical data.Comment: 17 pages, 15 figure

Neural development features: Spatio-temporal development of the Caenorhabditis elegans neuronal network

The nematode Caenorhabditis elegans, with information on neural connectivity, three-dimensional position and cell linage provides a unique system for understanding the development of neural networks. Although C. elegans has been widely studied in the past, we present the first statistical study from a developmental perspective, with findings that raise interesting suggestions on the establishment of long-distance connections and network hubs. Here, we analyze the neuro-development for temporal and spatial features, using birth times of neurons and their three-dimensional positions. Comparisons of growth in C. elegans with random spatial network growth highlight two findings relevant to neural network development. First, most neurons which are linked by long-distance connections are born around the same time and early on, suggesting the possibility of early contact or interaction between connected neurons during development. Second, early-born neurons are more highly connected (tendency to form hubs) than later born neurons. This indicates that the longer time frame available to them might underlie high connectivity. Both outcomes are not observed for random connection formation. The study finds that around one-third of electrically coupled long-range connections are late forming, raising the question of what mechanisms are involved in ensuring their accuracy, particularly in light of the extremely invariant connectivity observed in C. elegans. In conclusion, the sequence of neural network development highlights the possibility of early contact or interaction in securing long-distance and high-degree connectivity

High speed all optical networks

An inherent problem of conventional point-to-point wide area network (WAN) architectures is that they cannot translate optical transmission bandwidth into comparable user available throughput due to the limiting electronic processing speed of the switching nodes. The first solution to wavelength division multiplexing (WDM) based WAN networks that overcomes this limitation is presented. The proposed Lightnet architecture takes into account the idiosyncrasies of WDM switching/transmission leading to an efficient and pragmatic solution. The Lightnet architecture trades the ample WDM bandwidth for a reduction in the number of processing stages and a simplification of each switching stage, leading to drastically increased effective network throughputs. The principle of the Lightnet architecture is the construction and use of virtual topology networks, embedded in the original network in the wavelength domain. For this construction Lightnets utilize the new concept of lightpaths which constitute the links of the virtual topology. Lightpaths are all-optical, multihop, paths in the network that allow data to be switched through intermediate nodes using high throughput passive optical switches. The use of the virtual topologies and the associated switching design introduce a number of new ideas, which are discussed in detail

The placement of the head that maximizes predictability. An information theoretic approach

The minimization of the length of syntactic dependencies is a well-established principle of word order and the basis of a mathematical theory of word order. Here we complete that theory from the perspective of information theory, adding a competing word order principle: the maximization of predictability of a target element. These two principles are in conflict: to maximize the predictability of the head, the head should appear last, which maximizes the costs with respect to dependency length minimization. The implications of such a broad theoretical framework to understand the optimality, diversity and evolution of the six possible orderings of subject, object and verb are reviewed.Comment: in press in Glottometric

A Literature Survey of Cooperative Caching in Content Distribution Networks

Content distribution networks (CDNs) which serve to deliver web objects (e.g., documents, applications, music and video, etc.) have seen tremendous growth since its emergence. To minimize the retrieving delay experienced by a user with a request for a web object, caching strategies are often applied - contents are replicated at edges of the network which is closer to the user such that the network distance between the user and the object is reduced. In this literature survey, evolution of caching is studied. A recent research paper [15] in the field of large-scale caching for CDN was chosen to be the anchor paper which serves as a guide to the topic. Research studies after and relevant to the anchor paper are also analyzed to better evaluate the statements and results of the anchor paper and more importantly, to obtain an unbiased view of the large scale collaborate caching systems as a whole.Comment: 5 pages, 5 figure

The front of the epidemic spread and first passage percolation

In this paper we establish a connection between epidemic models on random networks with general infection times considered in Barbour and Reinert 2013 and first passage percolation. Using techniques developed in Bhamidi, van der Hofstad, Hooghiemstra 2012, when each vertex has infinite contagious periods, we extend results on the epidemic curve in Barbour Reinert 2013 from bounded degree graphs to general sparse random graphs with degrees having finite third moments as the number of vertices tends to infinity. We also study the epidemic trail between the source and typical vertices in the graph. This connection to first passage percolation can be also be used to study epidemic models with general contagious periods as in Barbour Reinert 2013 without bounded degree assumptions.Comment: 14 page

A new design principle of robust onion-like networks self-organized in growth

Today's economy, production activity, and our life are sustained by social and technological network infrastructures, while new threats of network attacks by destructing loops have been found recently in network science. We inversely take into account the weakness, and propose a new design principle for incrementally growing robust networks. The networks are self-organized by enhancing interwoven long loops. In particular, we consider the range-limited approximation of linking by intermediations in a few hops, and show the strong robustness in the growth without degrading efficiency of paths. Moreover, we demonstrate that the tolerance of connectivity is reformable even from extremely vulnerable real networks according to our proposed growing process with some investment. These results may indicate a prospective direction to the future growth of our network infrastructures.Comment: 21 pages, 10 figures, 1 tabl