259 research outputs found
Micro-bias and macro-performance
We use agent-based modeling to investigate the effect of conservatism and
partisanship on the efficiency with which large populations solve the density
classification task--a paradigmatic problem for information aggregation and
consensus building. We find that conservative agents enhance the populations'
ability to efficiently solve the density classification task despite large
levels of noise in the system. In contrast, we find that the presence of even a
small fraction of partisans holding the minority position will result in
deadlock or a consensus on an incorrect answer. Our results provide a possible
explanation for the emergence of conservatism and suggest that even low levels
of partisanship can lead to significant social costs.Comment: 11 pages, 5 figure
Beyond mystery: Putting algorithmic accountability in context
Critical algorithm scholarship has demonstrated the difficulties of attributing accountability for the actions and effects of algorithmic systems. In this commentary, we argue that we cannot stop at denouncing the lack of accountability for algorithms and their effects but must engage the broader systems and distributed agencies that algorithmic systems exist within; including standards, regulations, technologies, and social relations. To this end, we explore accountability in âthe Generated Detective,â an algorithmically generated comic. Taking up the mantle of detectives ourselves, we investigate accountability in relation to this piece of experimental fiction. We problematize efforts to effect accountability through transparency by undertaking a simple operation: asking for permission to re-publish a set of the algorithmically selected and modified words and images which make the frames of the comic. Recounting this process, we demonstrate slippage between the âcomplicationâ of the algorithm and the obscurity of the legal and institutional structures in which it exists
Improving automated model reconstruction across phylogenetically diverse genome-scale metabolic models
info:eu-repo/semantics/publishedVersio
Automated pathway curation and improving metabolic model reconstruction based on phylogenetic analysis of pathway conservation
ICSB 2017 - 18th International Conference on Systems BiologyMetabolic models generated by automated reconstruction pipelines are widely used for high-throughput prediction of microbial phenotypes. However, the generation of accurate in-silico phenotype predictions based solely on genomic data continues to be a challenge as metabolic models often require extensive gapfilling in order to produce biomass. As a result, the true physiological profile of an organism can be altered by the addition of non-native biochemical pathways or reactions during the gapfilling process. In this study, we constructed draft genome-scale metabolic models for ~1000 diverse set of reference microbial genomes currently available in GenBank, and we decomposed these models into a set of classical biochemical pathways. We then determine the extent to which each pathway is either consistently present or absent in each region of the phylogenetic tree, and we study the degree of conservation in the specific steps where gaps exist in each pathway across a phylogenetic neighborhood. Based on this analysis, we improved the reliability of our gapfilling algorithms, which in turn, improved the reliability of our models in predicting auxotrophy. This also resulted in improvements to the genome annotations underlying our models. We validated our improved auxotrophy predictions using growth condition data collected for a diverse set of organisms. Our improved gapfilling algorithm will be available for use within the DOE Knowledgebase (KBase) platform (https://kbase.us).info:eu-repo/semantics/publishedVersio
Identifying Unique Neighborhood Characteristics to Guide Health Planning for Stroke and Heart Attack: Fuzzy Cluster and Discriminant Analyses Approaches
Socioeconomic, demographic, and geographic factors are known determinants of stroke and myocardial infarction (MI) risk. Clustering of these factors in neighborhoods needs to be taken into consideration during planning, prioritization and implementation of health programs intended to reduce disparities. Given the complex and multidimensional nature of these factors, multivariate methods are needed to identify neighborhood clusters of these determinants so as to better understand the unique neighborhood profiles. This information is critical for evidence-based health planning and service provision. Therefore, this study used a robust multivariate approach to classify neighborhoods and identify their socio-demographic characteristics so as to provide information for evidence-based neighborhood health planning for stroke and MI.The study was performed in East Tennessee Appalachia, an area with one of the highest stroke and MI risks in USA. Robust principal component analysis was performed on neighborhood (census tract) socioeconomic and demographic characteristics, obtained from the US Census, to reduce the dimensionality and influence of outliers in the data. Fuzzy cluster analysis was used to classify neighborhoods into Peer Neighborhoods (PNs) based on their socioeconomic and demographic characteristics. Nearest neighbor discriminant analysis and decision trees were used to validate PNs and determine the characteristics important for discrimination. Stroke and MI mortality risks were compared across PNs. Four distinct PNs were identified and their unique characteristics and potential health needs described. The highest risk of stroke and MI mortality tended to occur in less affluent PNs located in urban areas, while the suburban most affluent PNs had the lowest risk.Implementation of this multivariate strategy provides health planners useful information to better understand and effectively plan for the unique neighborhood health needs and is important in guiding resource allocation, service provision, and policy decisions to address neighborhood health disparities and improve population health
Expression of Distal-less, dachshund, and optomotor blind in Neanthes arenaceodentata (Annelida, Nereididae) does not support homology of appendage-forming mechanisms across the Bilateria
The similarity in the genetic regulation of
arthropod and vertebrate appendage formation has been
interpreted as the product of a plesiomorphic gene
network that was primitively involved in bilaterian
appendage development and co-opted to build appendages
(in modern phyla) that are not historically related
as structures. Data from lophotrochozoans are needed to
clarify the pervasiveness of plesiomorphic appendage forming
mechanisms. We assayed the expression of three
arthropod and vertebrate limb gene orthologs, Distal-less
(Dll), dachshund (dac), and optomotor blind (omb), in
direct-developing juveniles of the polychaete Neanthes
arenaceodentata. Parapodial Dll expression marks premorphogenetic
notopodia and neuropodia, becoming restricted
to the bases of notopodial cirri and to ventral
portions of neuropodia. In outgrowing cephalic appendages,
Dll activity is primarily restricted to proximal
domains. Dll expression is also prominent in the brain. dac
expression occurs in the brain, nerve cord ganglia, a pair
of pharyngeal ganglia, presumed interneurons linking a
pair of segmental nerves, and in newly differentiating
mesoderm. Domains of omb expression include the brain,
nerve cord ganglia, one pair of anterior cirri, presumed
precursors of dorsal musculature, and the same pharyngeal
ganglia and presumed interneurons that express dac.
Contrary to their roles in outgrowing arthropod and
vertebrate appendages, Dll, dac, and omb lack comparable
expression in Neanthes appendages, implying independent
evolution of annelid appendage development. We infer
that parapodia and arthropodia are not structurally or
mechanistically homologous (but their primordia might
be), that Dllâs ancestral bilaterian function was in sensory
and central nervous system differentiation, and that
locomotory appendages possibly evolved from sensory
outgrowths
Spreading Dynamics of Polymer Nanodroplets
The spreading of polymer droplets is studied using molecular dynamics
simulations. To study the dynamics of both the precursor foot and the bulk
droplet, large drops of ~200,000 monomers are simulated using a bead-spring
model for polymers of chain length 10, 20, and 40 monomers per chain. We
compare spreading on flat and atomistic surfaces, chain length effects, and
different applications of the Langevin and dissipative particle dynamics
thermostats. We find diffusive behavior for the precursor foot and good
agreement with the molecular kinetic model of droplet spreading using both flat
and atomistic surfaces. Despite the large system size and long simulation time
relative to previous simulations, we find no evidence of hydrodynamic behavior
in the spreading droplet.Comment: Physical Review E 11 pages 10 figure
Affordances, constraints and information flows as âleverage pointsâ in design for sustainable behaviour
Copyright @ 2012 Social Science Electronic PublishingTwo of Donella Meadows' 'leverage points' for intervening in systems (1999) seem particularly pertinent to design for sustainable behaviour, in the sense that designers may have the scope to implement them in (re-)designing everyday products and services. The 'rules of the system' -- interpreted here to refer to affordances and constraints -- and the structure of information flows both offer a range of opportunities for design interventions to in fluence behaviour change, and in this paper, some of the implications and possibilities are discussed with reference to parallel concepts from within design, HCI and relevant areas of psychology
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