Shortest Distances as Enumeration Problem

We investigate the single source shortest distance (SSSD) and all pairs shortest distance (APSD) problems as enumeration problems (on unweighted and integer weighted graphs), meaning that the elements $(u, v, d(u, v))$ -- where $u$ and $v$ are vertices with shortest distance $d(u, v)$ -- are produced and listed one by one without repetition. The performance is measured in the RAM model of computation with respect to preprocessing time and delay, i.e., the maximum time that elapses between two consecutive outputs. This point of view reveals that specific types of output (e.g., excluding the non-reachable pairs $(u, v, \infty)$, or excluding the self-distances $(u, u, 0)$) and the order of enumeration (e.g., sorted by distance, sorted row-wise with respect to the distance matrix) have a huge impact on the complexity of APSD while they appear to have no effect on SSSD. In particular, we show for APSD that enumeration without output restrictions is possible with delay in the order of the average degree. Excluding non-reachable pairs, or requesting the output to be sorted by distance, increases this delay to the order of the maximum degree. Further, for weighted graphs, a delay in the order of the average degree is also not possible without preprocessing or considering self-distances as output. In contrast, for SSSD we find that a delay in the order of the maximum degree without preprocessing is attainable and unavoidable for any of these requirements.Comment: Updated version adds the study of space complexit

Analysing Timelines of National Histories across Wikipedia Editions: A Comparative Computational Approach

Portrayals of history are never complete, and each description inherently exhibits a specific viewpoint and emphasis. In this paper, we aim to automatically identify such differences by computing timelines and detecting temporal focal points of written history across languages on Wikipedia. In particular, we study articles related to the history of all UN member states and compare them in 30 language editions. We develop a computational approach that allows to identify focal points quantitatively, and find that Wikipedia narratives about national histories (i) are skewed towards more recent events (recency bias) and (ii) are distributed unevenly across the continents with significant focus on the history of European countries (Eurocentric bias). We also establish that national historical timelines vary across language editions, although average interlingual consensus is rather high. We hope that this paper provides a starting point for a broader computational analysis of written history on Wikipedia and elsewhere

Social media in academia: how the Social Web is changing academic practice and becoming a new source for research data

For the last few decades, the Internet continually has changed scholarly workflows across disciplines. It has affected how scholars search for publications, retrieve information and communicate and distribute their own research findings. Online communication and collaboration influences academic institutions as well as academic publishers, science journalists and students. Within this special issue, we focus on social media and its influence on academic practice. (auhtor's abstract

Diattenuation of Brain Tissue and its Impact on 3D Polarized Light Imaging

3D-Polarized Light Imaging (3D-PLI) reconstructs nerve fibers in histological brain sections by measuring their birefringence. This study investigates another effect caused by the optical anisotropy of brain tissue - diattenuation. Based on numerical and experimental studies and a complete analytical description of the optical system, the diattenuation was determined to be below 4 % in rat brain tissue. It was demonstrated that the diattenuation effect has negligible impact on the fiber orientations derived by 3D-PLI. The diattenuation signal, however, was found to highlight different anatomical structures that cannot be distinguished with current imaging techniques, which makes Diattenuation Imaging a promising extension to 3D-PLI.Comment: 32 pages, 15 figure

Fine-Grained Complexity of Regular Path Queries

A regular path query (RPQ) is a regular expression q that returns all node pairs (u, v) from a graph database that are connected by an arbitrary path labelled with a word from L(q). The obvious algorithmic approach to RPQ evaluation (called PG-approach), i. e., constructing the product graph between an NFA for q and the graph database, is appealing due to its simplicity and also leads to efficient algorithms. However, it is unclear whether the PG-approach is optimal. We address this question by thoroughly investigating which upper complexity bounds can be achieved by the PG-approach, and we complement these with conditional lower bounds (in the sense of the fine-grained complexity framework). A special focus is put on enumeration and delay bounds, as well as the data complexity perspective. A main insight is that we can achieve optimal (or near optimal) algorithms with the PG-approach, but the delay for enumeration is rather high (linear in the database). We explore three successful approaches towards enumeration with sub-linear delay: super-linear preprocessing, approximations of the solution sets, and restricted classes of RPQs

Stochastic reconstruction of protein structures from effective connectivity profiles.

We discuss a stochastic approach for reconstructing the native structures of proteins from the knowledge of the "effective connectivity", which is a one-dimensional structural profile constructed as a linear combination of the eigenvectors of the contact map of the target structure. The structural profile is used to bias a search of the conformational space towards the target structure in a Monte Carlo scheme operating on a Calpha-chain of uniform, finite thickness. Structure information thus enters the folding dynamics via the effective connectivity, but the interaction is not restricted to pairs of amino acids that form native contacts, resulting in a free energy landscape which does not rely on the assumption of minimal frustration. Moreover, effective connectivity vectors can be predicted more readily from the amino acid sequence of proteins than the corresponding contact maps, thus suggesting that the stochastic protocol presented here could be effectively combined with other current methods for predicting native structures. PACS codes: 87.14.Ee.RIGHTS : This article is licensed under the BioMed Central licence at http://www.biomedcentral.com/about/license which is similar to the 'Creative Commons Attribution Licence'. In brief you may : copy, distribute, and display the work; make derivative works; or make commercial use of the work - under the following conditions: the original author must be given credit; for any reuse or distribution, it must be made clear to others what the license terms of this work are

A Jones matrix formalism for simulating three-dimensional polarized light imaging of brain tissue

The neuroimaging technique three-dimensional polarized light imaging (3D-PLI) provides a high-resolution reconstruction of nerve fibres in human post-mortem brains. The orientations of the fibres are derived from birefringence measurements of histological brain sections assuming that the nerve fibres - consisting of an axon and a surrounding myelin sheath - are uniaxial birefringent and that the measured optic axis is oriented in direction of the nerve fibres (macroscopic model). Although experimental studies support this assumption, the molecular structure of the myelin sheath suggests that the birefringence of a nerve fibre can be described more precisely by multiple optic axes oriented radially around the fibre axis (microscopic model). In this paper, we compare the use of the macroscopic and the microscopic model for simulating 3D-PLI by means of the Jones matrix formalism. The simulations show that the macroscopic model ensures a reliable estimation of the fibre orientations as long as the polarimeter does not resolve structures smaller than the diameter of single fibres. In the case of fibre bundles, polarimeters with even higher resolutions can be used without losing reliability. When taking the myelin density into account, the derived fibre orientations are considerably improved.Comment: 20 pages, 8 figure

Understanding Social Innovation Processes in Rural Areas: Empirical Evidence from Social Enterprises in Germany

Purpose: Against the background of increasing infrastructure loss in many rural areas, this study aims to contribute conceptually and empirically towards better understanding of rural innovation processes related to provision of public goods. Design/methodology/approach: The nationally focused understanding of innovation processes leads the debate on rural development into a dilemma that this study seeks to sidestep via the concept of social innovation. Community cooperatives – a type of social enterprise that has increasingly emerged in rural areas of Germany in the past decade – offer the opportunity to examine social innovation processes. This cross-case study reveals the broad range of activities in which such cooperatives are active and analyses their social innovation processes. Findings: The study shows that the social innovation governance framework enables examination of social innovation processes. Although macro-level policy has appeared to be an important instrument for financing social innovation, public actors at the micro-level seem barely able to initiate social innovation processes unless they are also private actors and, therefore, can pursue additional incentives. The social innovations studied here seem to differ in terms of their actor constellations and resource-allocation patterns, depending on whether they are concerned with the establishment or maintenance of local infrastructure. What they have in common, however, is the initiation of formalised collective-action processes that serve to legitimise social innovation. Originality/value: By applying an analytical framework that is new to the literature on social innovation, the study provides insight into the activities and decision-making processes of actors involved in social innovation in rural areas. In this context, community cooperatives have rarely been studied as an interface between public, private and civil society actors or as a platform for mobilising human, social and financial capital.Peer Reviewe

Dislocation multiplication by cross-slip and glissile reaction in a dislocation based continuum formulation of crystal plasticity

Modeling dislocation multiplication due to interaction and reactions on a mesoscopic scale is an important task for the physically meaningful description of stage II hardening in face centered cubic crystalline materials. In recent Discrete Dislocation Dynamics simulations it is observed that dislocation multiplication is exclusively the result of mechanisms, which involve dislocation reactions between different slip systems. These findings contradict multiplication models in dislocation based continuum theories, in which density increase is related to plastic slip on the same slip system. An application of these models for the density evolution on individual slip systems results in self-replication of dislocation density. We introduce a formulation of dislocation multiplication in a dislocation based continuum formulation of plasticity derived from a mechanism-based homogenization of cross-slip and glissile reactions in three-dimensional face-centered cubic systems. As a key feature, the presented model includes the generation of dislocations based on an interplay of dislocation density on different slip systems. This particularly includes slip systems with vanishing shear stress. The results show, that the proposed dislocation multiplication formulation allows for a physically meaningful microstructural evolution without self-replication of dislocations density. The results are discussed in comparison to discrete dislocation dynamics simulations exposing the coupling of different slip systems as the central characteristic for the increase of dislocation density on active and inactive slip systems. (C) 2019 Elsevier Ltd. All rights reserved