scholarly journals An Analytical Approach to Network Motif Detection in Samples of Networks with Pairwise Different Vertex Labels

2012 ◽  
Vol 2012 ◽  
pp. 1-12 ◽  
Author(s):  
Christoph Schmidt ◽  
Thomas Weiss ◽  
Christian Komusiewicz ◽  
Herbert Witte ◽  
Lutz Leistritz

Network motifs, overrepresented small local connection patterns, are assumed to act as functional meaningful building blocks of a network and, therefore, received considerable attention for being useful for understanding design principles and functioning of networks. We present an extension of the original approach to network motif detection in single, directed networks without vertex labeling to the case of a sample of directed networks with pairwise different vertex labels. A characteristic feature of this approach to network motif detection is that subnetwork counts are derived from the whole sample and the statistical tests are adjusted accordingly to assign significance to the counts. The associated computations are efficient since no simulations of random networks are involved. The motifs obtained by this approach also comprise the vertex labeling and its associated information and are characteristic of the sample. Finally, we apply this approach to describe the intricate topology of a sample of vertex-labeled networks which originate from a previous EEG study, where the processing of painful intracutaneous electrical stimuli and directed interactions within the neuromatrix of pain in patients with major depression and healthy controls was investigated. We demonstrate that the presented approach yields characteristic patterns of directed interactions while preserving their important topological information and omitting less relevant interactions.

Author(s):  
Jessica Di Salvatore ◽  
Andrea Ruggeri

Abstract How does space matter in our analyses? How can we evaluate diffusion of phenomena or interdependence among units? How biased can our analysis be if we do not consider spatial relationships? All the above questions are critical theoretical and empirical issues for political scientists belonging to several subfields from Electoral Studies to Comparative Politics, and also for International Relations. In this special issue on methods, our paper introduces political scientists to conceptualizing interdependence between units and how to empirically model these interdependencies using spatial regression. First, the paper presents the building blocks of any feature of spatial data (points, polygons, and raster) and the task of georeferencing. Second, the paper discusses what a spatial matrix (W) is, its varieties and the assumptions we make when choosing one. Third, the paper introduces how to investigate spatial clustering through visualizations (e.g. maps) as well as statistical tests (e.g. Moran's index). Fourth and finally, the paper explains how to model spatial relationships that are of substantive interest to some of our research questions. We conclude by inviting researchers to carefully consider space in their analysis and to reflect on the need, or the lack thereof, to use spatial models.


2011 ◽  
Vol 5 (Suppl 3) ◽  
pp. S5 ◽  
Author(s):  
Wooyoung Kim ◽  
Min Li ◽  
Jianxin Wang ◽  
Yi Pan

Entropy ◽  
2019 ◽  
Vol 21 (9) ◽  
pp. 869 ◽  
Author(s):  
Pierre Baudot ◽  
Monica Tapia ◽  
Daniel Bennequin ◽  
Jean-Marc Goaillard

This paper presents methods that quantify the structure of statistical interactions within a given data set, and were applied in a previous article. It establishes new results on the k-multivariate mutual-information ( I k ) inspired by the topological formulation of Information introduced in a serie of studies. In particular, we show that the vanishing of all I k for 2 ≤ k ≤ n of n random variables is equivalent to their statistical independence. Pursuing the work of Hu Kuo Ting and Te Sun Han, we show that information functions provide co-ordinates for binary variables, and that they are analytically independent from the probability simplex for any set of finite variables. The maximal positive I k identifies the variables that co-vary the most in the population, whereas the minimal negative I k identifies synergistic clusters and the variables that differentiate–segregate the most in the population. Finite data size effects and estimation biases severely constrain the effective computation of the information topology on data, and we provide simple statistical tests for the undersampling bias and the k-dependences. We give an example of application of these methods to genetic expression and unsupervised cell-type classification. The methods unravel biologically relevant subtypes, with a sample size of 41 genes and with few errors. It establishes generic basic methods to quantify the epigenetic information storage and a unified epigenetic unsupervised learning formalism. We propose that higher-order statistical interactions and non-identically distributed variables are constitutive characteristics of biological systems that should be estimated in order to unravel their significant statistical structure and diversity. The topological information data analysis presented here allows for precisely estimating this higher-order structure characteristic of biological systems.


PLoS ONE ◽  
2020 ◽  
Vol 15 (3) ◽  
pp. e0231195
Author(s):  
Xin Li ◽  
Rebecca J. Stones ◽  
Haidong Wang ◽  
Hualiang Deng ◽  
Xiaoguang Liu ◽  
...  

2017 ◽  
Vol 12 (3) ◽  
pp. 500-523 ◽  
Author(s):  
Ruxandra Bejinaru

AbstractThe purpose of this paper is to present a new construct of the intellectual capital structure, based on the multifield theory of knowledge and the concept of nonlinear integrators and to identify the knowledge strategies to enhance the intellectual capital of universities. The paper presents a new approach, based on metaphorical thinking and thermodynamics logic in structuring the intellectual capital, based on the multifield theory of knowledge into its basic building blocks. Considering the two levels of intellectual capital, the paper presents the main knowledge strategies to enhance the university intellectual capital. The basic building blocks of the intellectual capital are: rational, emotional, and spiritual intellectual capital. Each building block is based on the corresponding field of knowledge. There are two significant levels of intellectual capital: potential and operational. Analyzing the university intellectual capital by using this new approach is much more realistic than in the previous approaches. The new approach is based on a thermodynamics paradigm, which means we need to develop new ways of thinking, evaluating, and enhancing the intellectual capital. The paper presents an original approach, based on metaphorical thinking, by considering basic ideas from the energy realm and thermodynamics theory. Also, the paper presents a matrix of possible knowledge strategies to increase the intellectual capital of universities.


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