Multinational Companies in Ukraine and University Alumni Networks

The paper presents the results of the pilot empirical study of the network structures formed between subsidiaries of multinational companies (MNCs) and Ukrainian universities. Main research questions are as follows: what is the network between MNCs and universities through graduates who possess various employments in MNCs after graduation like; what subgroups/clusters can be defined within interorganizational network; what are the potential paths (accessing actors) for the information transfer and innovations diffusion from the universities to the MNCs and vice versa; what actors and ties are the most central for enhancing cooperation within the network. The pilot sample included graduates of various disciplines (humanities, social sciences, finance, engineering & computer sciences, and natural sciences) who got diploma within the last 10 years in TOP-7 of Ukrainian universities located in different regions. The crucial characteristics of graduates was current employment or experience of employment in the MNCs. Network affiliation data was collected through online questionnaires, from the CVs of graduates as well as several half-structured interviews with them. The analysis was performed for the 2-mode network first (with regard to the basic network measures) and then – for the interorganizational 1-mode network

Exponential synchronization of complex networks with Markovian jump and mixed delays

This is the post print version of the article. The official published version can be obtained from the link - Copyright 2008 Elsevier LtdIn this Letter, we investigate the exponential synchronization problem for an array of N linearly coupled complex networks with Markovian jump and mixed time-delays. The complex network consists of m modes and the network switches from one mode to another according to a Markovian chain with known transition probability. The mixed time-delays are composed of discrete and distributed delays, both of which are mode-dependent. The nonlinearities imbedded with the complex networks are assumed to satisfy the sector condition that is more general than the commonly used Lipschitz condition. By making use of the Kronecker product and the stochastic analysis tool, we propose a novel Lyapunov–Krasovskii functional suitable for handling distributed delays and then show that the addressed synchronization problem is solvable if a set of linear matrix inequalities (LMIs) are feasible. Therefore, a unified LMI approach is developed to establish sufficient conditions for the coupled complex network to be globally exponentially synchronized in the mean square. Note that the LMIs can be easily solved by using the Matlab LMI toolbox and no tuning of parameters is required. A simulation example is provided to demonstrate the usefulness of the main results obtained.This work was supported in part by the Biotechnology and Biological Sciences Research Council (BBSRC) of the UK under Grants BB/C506264/1 and 100/EGM17735, the Engineering and Physical Sciences Research Council (EPSRC) of the UK under Grants GR/S27658/01 and EP/C524586/1, an International Joint Project sponsored by the Royal Society of the UK, the Natural Science Foundation of Jiangsu Province of China under Grant BK2007075, the National Natural Science Foundation of China under Grant 60774073, and the Alexander von Humboldt Foundation of Germany

Networks of reader and country status: An analysis of Mendeley reader statistics

The number of papers published in journals indexed by the Web of Science core collection is steadily increasing. In recent years, nearly two million new papers were published each year; somewhat more than one million papers when primary research papers are considered only (articles and reviews are the document types where primary research is usually reported or reviewed). However, who reads these papers? More precisely, which groups of researchers from which (self-assigned) scientific disciplines and countries are reading these papers? Is it possible to visualize readership patterns for certain countries, scientific disciplines, or academic status groups? One popular method to answer these questions is a network analysis. In this study, we analyze Mendeley readership data of a set of 1,133,224 articles and 64,960 reviews with publication year 2012 to generate three different kinds of networks: (1) The network based on disciplinary affiliations of Mendeley readers contains four groups: (i) biology, (ii) social science and humanities (including relevant computer science), (iii) bio-medical sciences, and (iv) natural science and engineering. In all four groups, the category with the addition "miscellaneous" prevails. (2) The network of co-readers in terms of professional status shows that a common interest in papers is mainly shared among PhD students, Master's students, and postdocs. (3) The country network focusses on global readership patterns: a group of 53 nations is identified as core to the scientific enterprise, including Russia and China as well as two thirds of the OECD (Organisation for Economic Co-operation and Development) countries.Comment: 26 pages, 6 figures (also web-based startable), and 2 table

The fidelity of dynamic signaling by noisy biomolecular networks

This is the final version of the article. Available from Public Library of Science via the DOI in this record.Cells live in changing, dynamic environments. To understand cellular decision-making, we must therefore understand how fluctuating inputs are processed by noisy biomolecular networks. Here we present a general methodology for analyzing the fidelity with which different statistics of a fluctuating input are represented, or encoded, in the output of a signaling system over time. We identify two orthogonal sources of error that corrupt perfect representation of the signal: dynamical error, which occurs when the network responds on average to other features of the input trajectory as well as to the signal of interest, and mechanistic error, which occurs because biochemical reactions comprising the signaling mechanism are stochastic. Trade-offs between these two errors can determine the system's fidelity. By developing mathematical approaches to derive dynamics conditional on input trajectories we can show, for example, that increased biochemical noise (mechanistic error) can improve fidelity and that both negative and positive feedback degrade fidelity, for standard models of genetic autoregulation. For a group of cells, the fidelity of the collective output exceeds that of an individual cell and negative feedback then typically becomes beneficial. We can also predict the dynamic signal for which a given system has highest fidelity and, conversely, how to modify the network design to maximize fidelity for a given dynamic signal. Our approach is general, has applications to both systems and synthetic biology, and will help underpin studies of cellular behavior in natural, dynamic environments.We acknowledge support from a Medical Research Council and Engineering and Physical Sciences Council funded Fellowship in Biomedical Informatics (CGB) and a Scottish Universities Life Sciences Alliance chair in Systems Biology (PSS). The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript

Upon accounting for the impact of isoenzyme loss, gene deletion costs anticorrelate with their evolutionary rates

System-level metabolic network models enable the computation of growth and metabolic phenotypes from an organism’s genome. In particular, flux balance approaches have been used to estimate the contribution of individual metabolic genes to organismal fitness, offering the opportunity to test whether such contributions carry information about the evolutionary pressure on the corresponding genes. Previous failure to identify the expected negative correlation between such computed gene-loss cost and sequence-derived evolutionary rates in Saccharomyces cerevisiae has been ascribed to a real biological gap between a gene’s fitness contribution to an organism “here and now” and the same gene’s historical importance as evidenced by its accumulated mutations over millions of years of evolution. Here we show that this negative correlation does exist, and can be exposed by revisiting a broadly employed assumption of flux balance models. In particular, we introduce a new metric that we call “function-loss cost”, which estimates the cost of a gene loss event as the total potential functional impairment caused by that loss. This new metric displays significant negative correlation with evolutionary rate, across several thousand minimal environments. We demonstrate that the improvement gained using function-loss cost over gene-loss cost is explained by replacing the base assumption that isoenzymes provide unlimited capacity for backup with the assumption that isoenzymes are completely non-redundant. We further show that this change of the assumption regarding isoenzymes increases the recall of epistatic interactions predicted by the flux balance model at the cost of a reduction in the precision of the predictions. In addition to suggesting that the gene-to-reaction mapping in genome-scale flux balance models should be used with caution, our analysis provides new evidence that evolutionary gene importance captures much more than strict essentiality.This work was supported by the National Science Foundation, grant CCF-1219007 to YX; the Natural Sciences and Engineering Research Council of Canada, grant RGPIN-2014-03892 to YX; the National Institute of Health, grants 5R01GM089978 and 5R01GM103502 to DS; the Army Research Office - Multidisciplinary University Research Initiative, grant W911NF-12-1-0390 to DS; the US Department of Energy, grant DE-SC0012627 to DS; and by the Canada Research Chairs Program (YX). The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript. (CCF-1219007 - National Science Foundation; RGPIN-2014-03892 - Natural Sciences and Engineering Research Council of Canada; 5R01GM089978 - National Institute of Health; 5R01GM103502 - National Institute of Health; W911NF-12-1-0390 - Army Research Office - Multidisciplinary University Research Initiative; DE-SC0012627 - US Department of Energy; Canada Research Chairs Program)Published versio

Analyzing the theoretical capacity of railway networks with a radial-backbone topology

In this work we propose a mechanism to optimize the capacity of the main corridor within a railway network with a radial-backbone or X-tree structure. The radial-backbone (or Xtree) structure is composed of two types of lines: the primary lines that travel exclusively on the common backbone (main corridor) and radial lines which, starting from the common backbone, branch out to individual locations. We define possible line configurations as binary strings and propose operators on them for their analysis, yielding an effective algorithm for generating an optimal design and train frequencies. We test our algorithm on real data for the high speed line Madrid-Seville. A frequency plan consistent with the optimal capacity is then proposed in order to eliminate the number of transfers between lines as well as to minimize the network fleet size, determining the minimum number of vehicles needed to serve all travel demand at maximum occupancy.Ministerio de Economía y Competitividad MTM2012-37048Junta de Andalucía P09-TEP-5022Junta de Andalucía P10-FQM-5849Canadian Natural Sciences and Engineering Research Council 39682-1

A review on analysis and synthesis of nonlinear stochastic systems with randomly occurring incomplete information

Copyright q 2012 Hongli Dong et al. This is an open access article distributed under the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.In the context of systems and control, incomplete information refers to a dynamical system in which knowledge about the system states is limited due to the difficulties in modeling complexity in a quantitative way. The well-known types of incomplete information include parameter uncertainties and norm-bounded nonlinearities. Recently, in response to the development of network technologies, the phenomenon of randomly occurring incomplete information has become more and more prevalent. Such a phenomenon typically appears in a networked environment. Examples include, but are not limited to, randomly occurring uncertainties, randomly occurring nonlinearities, randomly occurring saturation, randomly missing measurements and randomly occurring quantization. Randomly occurring incomplete information, if not properly handled, would seriously deteriorate the performance of a control system. In this paper, we aim to survey some recent advances on the analysis and synthesis problems for nonlinear stochastic systems with randomly occurring incomplete information. The developments of the filtering, control and fault detection problems are systematically reviewed. Latest results on analysis and synthesis of nonlinear stochastic systems are discussed in great detail. In addition, various distributed filtering technologies over sensor networks are highlighted. Finally, some concluding remarks are given and some possible future research directions are pointed out. © 2012 Hongli Dong et al.This work was supported in part by the National Natural Science Foundation of China under Grants 61273156, 61134009, 61273201, 61021002, and 61004067, the Engineering and Physical Sciences Research Council (EPSRC) of the UK under Grant GR/S27658/01, the Royal Society of the UK, the National Science Foundation of the USA under Grant No. HRD-1137732, and the Alexander von Humboldt Foundation of German

Ultrasensitive Negative Feedback Control: A Natural Approach for the Design of Synthetic Controllers

This is the final version of the article. Available from Public Library of Science via the DOI in this record.Many of the most important potential applications of Synthetic Biology will require the ability to design and implement high performance feedback control systems that can accurately regulate the dynamics of multiple molecular species within the cell. Here, we argue that the use of design strategies based on combining ultrasensitive response dynamics with negative feedback represents a natural approach to this problem that fully exploits the strongly nonlinear nature of cellular information processing. We propose that such feedback mechanisms can explain the adaptive responses observed in one of the most widely studied biomolecular feedback systems—the yeast osmoregulatory response network. Based on our analysis of such system, we identify strong links with a well-known branch of mathematical systems theory from the field of Control Engineering, known as Sliding Mode Control. These insights allow us to develop design guidelines that can inform the construction of feedback controllers for synthetic biological systems.This work was funded by the UK Engineering and Physical Sciences Research Council (EPSRC), grant number EP/I017445/1

Distributed state estimation in sensor networks with randomly occurring nonlinearities subject to time delays

This is the post-print version of the Article. The official published version can be accessed from the links below - Copyright @ 2012 ACM.This article is concerned with a new distributed state estimation problem for a class of dynamical systems in sensor networks. The target plant is described by a set of differential equations disturbed by a Brownian motion and randomly occurring nonlinearities (RONs) subject to time delays. The RONs are investigated here to reflect network-induced randomly occurring regulation of the delayed states on the current ones. Through available measurement output transmitted from the sensors, a distributed state estimator is designed to estimate the states of the target system, where each sensor can communicate with the neighboring sensors according to the given topology by means of a directed graph. The state estimation is carried out in a distributed way and is therefore applicable to online application. By resorting to the Lyapunov functional combined with stochastic analysis techniques, several delay-dependent criteria are established that not only ensure the estimation error to be globally asymptotically stable in the mean square, but also guarantee the existence of the desired estimator gains that can then be explicitly expressed when certain matrix inequalities are solved. A numerical example is given to verify the designed distributed state estimators.This work was supported in part by the National Natural Science Foundation of China under Grants 61028008, 60804028 and 61174136, the Qing Lan Project of Jiangsu Province of China, the Project sponsored by SRF for ROCS of SEM of China, the Engineering and Physical Sciences Research Council (EPSRC) of the UK under Grant GR/S27658/01, the Royal Society of the UK, and the Alexander von Humboldt Foundation of Germany