116,941 research outputs found
Evolution and Analysis of Embodied Spiking Neural Networks Reveals Task-Specific Clusters of Effective Networks
Elucidating principles that underlie computation in neural networks is
currently a major research topic of interest in neuroscience. Transfer Entropy
(TE) is increasingly used as a tool to bridge the gap between network
structure, function, and behavior in fMRI studies. Computational models allow
us to bridge the gap even further by directly associating individual neuron
activity with behavior. However, most computational models that have analyzed
embodied behaviors have employed non-spiking neurons. On the other hand,
computational models that employ spiking neural networks tend to be restricted
to disembodied tasks. We show for the first time the artificial evolution and
TE-analysis of embodied spiking neural networks to perform a
cognitively-interesting behavior. Specifically, we evolved an agent controlled
by an Izhikevich neural network to perform a visual categorization task. The
smallest networks capable of performing the task were found by repeating
evolutionary runs with different network sizes. Informational analysis of the
best solution revealed task-specific TE-network clusters, suggesting that
within-task homogeneity and across-task heterogeneity were key to behavioral
success. Moreover, analysis of the ensemble of solutions revealed that
task-specificity of TE-network clusters correlated with fitness. This provides
an empirically testable hypothesis that links network structure to behavior.Comment: Camera ready version of accepted for GECCO'1
Domain-mediated interactions for protein subfamily identification
Within a protein family, proteins with the same domain often exhibit different cellular functions, despite the shared evolutionary history and molecular function of the domain. We hypothesized that domain-mediated interactions (DMIs) may categorize a protein family into subfamilies because the diversified functions of a single domain often depend on interacting partners of domains. Here we systematically identified DMI subfamilies, in which proteins share domains with DMI partners, as well as with various functional and physical interaction networks in individual species. In humans, DMI subfamily members are associated with similar diseases, including cancers, and are frequently co-associated with the same diseases. DMI information relates to the functional and evolutionary subdivisions of human kinases. In yeast, DMI subfamilies contain proteins with similar phenotypic outcomes from specific chemical treatments. Therefore, the systematic investigation here provides insights into the diverse functions of subfamilies derived from a protein family with a link-centric approach and suggests a useful resource for annotating the functions and phenotypic outcomes of proteins.11Ysciescopu
Common Territory? : Comparing the IMP Approach with Economic Geography
The IMP research tradition has always been open to the cross-fertilisation of ideas with other social science disciplines that study similar phenomena. Recent years have seen a growing interest among IMP researchers in phenomena such as regional strategic networks, spatial clusters and innovation and new business development in networks. IMP papers published on these topics are increasingly citing conceptual frameworks and empirical findings from the field of economic geography. This paper discusses the development of IMP thought and the development of thought in economic geography (particularly evolutionary economic geography), and compares their approaches to the analysis of regional phenomena. The goal is to identify key ideas from economic geography that have been under-exploited in IMP research, in order to suggest original new approaches available to IMP researchers interested in these fields. A number of such ideas are explored: proximity as a multi-dimensional and multi-faceted concept; the distinction between, and relative importance of, learning activities arising automatically from being embedded in a community (local or regional buzz) and learning activities arising from positive investment in channels of communication (pipelines); the concept of relational capital developed by economic geographers; and, conceptualisations of externalities commonly used in the study of spatial clustersPeer reviewedFinal Accepted Versio
Evolutionary Events in a Mathematical Sciences Research Collaboration Network
This study examines long-term trends and shifting behavior in the
collaboration network of mathematics literature, using a subset of data from
Mathematical Reviews spanning 1985-2009. Rather than modeling the network
cumulatively, this study traces the evolution of the "here and now" using
fixed-duration sliding windows. The analysis uses a suite of common network
diagnostics, including the distributions of degrees, distances, and clustering,
to track network structure. Several random models that call these diagnostics
as parameters help tease them apart as factors from the values of others. Some
behaviors are consistent over the entire interval, but most diagnostics
indicate that the network's structural evolution is dominated by occasional
dramatic shifts in otherwise steady trends. These behaviors are not distributed
evenly across the network; stark differences in evolution can be observed
between two major subnetworks, loosely thought of as "pure" and "applied",
which approximately partition the aggregate. The paper characterizes two major
events along the mathematics network trajectory and discusses possible
explanatory factors.Comment: 30 pages, 14 figures, 1 table; supporting information: 5 pages, 5
figures; published in Scientometric
Clustered marginalization of minorities during social transitions induced by co-evolution of behaviour and network structure
Large-scale transitions in societies are associated with both individual
behavioural change and restructuring of the social network. These two factors
have often been considered independently, yet recent advances in social network
research challenge this view. Here we show that common features of societal
marginalization and clustering emerge naturally during transitions in a
co-evolutionary adaptive network model. This is achieved by explicitly
considering the interplay between individual interaction and a dynamic network
structure in behavioural selection. We exemplify this mechanism by simulating
how smoking behaviour and the network structure get reconfigured by changing
social norms. Our results are consistent with empirical findings: The
prevalence of smoking was reduced, remaining smokers were preferentially
connected among each other and formed increasingly marginalised clusters. We
propose that self-amplifying feedbacks between individual behaviour and dynamic
restructuring of the network are main drivers of the transition. This
generative mechanism for co-evolution of individual behaviour and social
network structure may apply to a wide range of examples beyond smoking.Comment: 16 pages, 5 figure
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