Jari Saramäki

Bio: Jari Saramäki is an academic researcher from Aalto University. The author has contributed to research in topics: Complex network & Weighted network. The author has an hindex of 48, co-authored 154 publications receiving 12967 citations. Previous affiliations of Jari Saramäki include Helsinki University of Technology & Helsinki Institute for Information Technology.

Temporal Networks

Abstract: A great variety of systems in nature, society and technology -- from the web of sexual contacts to the Internet, from the nervous system to power grids -- can be modeled as graphs of vertices coupled by edges The network structure, describing how the graph is wired, helps us understand, predict and optimize the behavior of dynamical systems In many cases, however, the edges are not continuously active As an example, in networks of communication via email, text messages, or phone calls, edges represent sequences of instantaneous or practically instantaneous contacts In some cases, edges are active for non-negligible periods of time: eg, the proximity patterns of inpatients at hospitals can be represented by a graph where an edge between two individuals is on throughout the time they are at the same ward Like network topology, the temporal structure of edge activations can affect dynamics of systems interacting through the network, from disease contagion on the network of patients to information diffusion over an e-mail network In this review, we present the emergent field of temporal networks, and discuss methods for analyzing topological and temporal structure and models for elucidating their relation to the behavior of dynamical systems In the light of traditional network theory, one can see this framework as moving the information of when things happen from the dynamical system on the network, to the network itself Since fundamental properties, such as the transitivity of edges, do not necessarily hold in temporal networks, many of these methods need to be quite different from those for static networks

Structure and tie strengths in mobile communication networks

Abstract: ncovering the structure and function of communication networks has always been constrained by the practical difficulty of mapping out interactions among a large number of individuals. Indeed, most of our current understanding of com- munication and social networks is based on questionnaire data, reaching typically a few dozen individuals and relying on the individual's opinion to reveal the nature and the strength of the ties. The fact that currently an increasing fraction of human interactions are recorded, from e-mail (1-3) to phone records (4), offers unprecedented opportunities to uncover and explore the large scale characteristics of communication and social networks (5). Here we take a first step in this direction by exploiting the widespread use of mobile phones to construct a map of a society-wide communication network, capturing the mobile interaction patterns of millions of individuals. The data set allows us to explore the relationship between the topology of the network and the tie strengths between individuals, informa- tion that was inaccessible at the societal level before. We demonstrate a local coupling between tie strengths and network topology, and show that this coupling has important conse- quences for the network's global stability if ties are removed, as well as for the spread of news and ideas within the network. A significant portion of a country's communication network wasreconstructedfrom18weeksofallmobilephonecallrecords among 20% of the country's entire population, 90% of whose

Intensity and coherence of motifs in weighted complex networks

Abstract: The local structure of unweighted networks can be characterized by the number of times a subgraph appears in the network. The clustering coefficient, reflecting the local configuration of triangles, can be seen as a special case of this approach. In this paper we generalize this method for weighted networks. We introduce subgraph ``intensity'' as the geometric mean of its link weights and ``coherence'' as the ratio of the geometric to the corresponding arithmetic mean. Using these measures, motif scores and clustering coefficient can be generalized to weighted networks. To demonstrate these concepts, we apply them to financial and metabolic networks and find that inclusion of weights may considerably modify the conclusions obtained from the study of unweighted characteristics.

Small but slow world: how network topology and burstiness slow down spreading

Abstract: While communication networks show the small-world property of short paths, the spreading dynamics in them turns out slow. Here, the time evolution of information propagation is followed through communication networks by using empirical data on contact sequences and the susceptible-infected model. Introducing null models where event sequences are appropriately shuffled, we are able to distinguish between the contributions of different impeding effects. The slowing down of spreading is found to be caused mainly by weight-topology correlations and the bursty activity patterns of individuals.

Generalizations of the clustering coefficient to weighted complex networks

Abstract: The recent high level of interest in weighted complex networks gives rise to a need to develop new measures and to generalize existing ones to take the weights of links into account. Here we focus on various generalizations of the clustering coefficient, which is one of the central characteristics in the complex network theory. We present a comparative study of the several suggestions introduced in the literature, and point out their advantages and limitations. The concepts are illustrated by simple examples as well as by empirical data of the world trade and weighted coauthorship networks.

疟原虫var基因转换速率变化导致抗原变异[英]／Paul H, Robert P, Christodoulou Z, et al//Proc Natl Acad Sci U S A

Abstract: 抗原变异可使得多种致病微生物易于逃避宿主免疫应答。表达在感染红细胞表面的恶性疟原虫红细胞表面蛋白1（PfPMP1）与感染红细胞、内皮细胞、树突状细胞以及胎盘的单个或多个受体作用，在黏附及免疫逃避中起关键的作用。每个单倍体基因组var基因家族编码约60种成员，通过启动转录不同的var基因变异体为抗原变异提供了分子基础。

Fast unfolding of communities in large networks

Abstract: We propose a simple method to extract the community structure of large networks. Our method is a heuristic method that is based on modularity optimization. It is shown to outperform all other known community detection method in terms of computation time. Moreover, the quality of the communities detected is very good, as measured by the so-called modularity. This is shown first by identifying language communities in a Belgian mobile phone network of 2.6 million customers and by analyzing a web graph of 118 million nodes and more than one billion links. The accuracy of our algorithm is also verified on ad-hoc modular networks. .

Fast unfolding of communities in large networks

Abstract: We propose a simple method to extract the community structure of large networks. Our method is a heuristic method that is based on modularity optimization. It is shown to outperform all other known community detection methods in terms of computation time. Moreover, the quality of the communities detected is very good, as measured by the so-called modularity. This is shown first by identifying language communities in a Belgian mobile phone network of 2 million customers and by analysing a web graph of 118 million nodes and more than one billion links. The accuracy of our algorithm is also verified on ad hoc modular networks.

Community detection in graphs

Abstract: The modern science of networks has brought significant advances to our understanding of complex systems. One of the most relevant features of graphs representing real systems is community structure, or clustering, i. e. the organization of vertices in clusters, with many edges joining vertices of the same cluster and comparatively few edges joining vertices of different clusters. Such clusters, or communities, can be considered as fairly independent compartments of a graph, playing a similar role like, e. g., the tissues or the organs in the human body. Detecting communities is of great importance in sociology, biology and computer science, disciplines where systems are often represented as graphs. This problem is very hard and not yet satisfactorily solved, despite the huge effort of a large interdisciplinary community of scientists working on it over the past few years. We will attempt a thorough exposition of the topic, from the definition of the main elements of the problem, to the presentation of most methods developed, with a special focus on techniques designed by statistical physicists, from the discussion of crucial issues like the significance of clustering and how methods should be tested and compared against each other, to the description of applications to real networks.