A Multiscale Approach for Statistical Characterization of Functional Images

Increasingly, scientific studies yield functional image data, in which the observed data consist of sets of curves recorded on the pixels of the image. Examples include temporal brain response intensities measured by fMRI and NMR frequency spectra measured at each pixel. This article presents a new methodology for improving the characterization of pixels in functional imaging, formulated as a spatial curve clustering problem. Our method operates on curves as a unit. It is nonparametric and involves multiple stages: (i) wavelet thresholding, aggregation, and Neyman truncation to effectively reduce dimensionality; (ii) clustering based on an extended EM algorithm; and (iii) multiscale penalized dyadic partitioning to create a spatial segmentation. We motivate the different stages with theoretical considerations and arguments, and illustrate the overall procedure on simulated and real datasets. Our method appears to offer substantial improvements over monoscale pixel-wise methods. An Appendix which gives some theoretical justifications of the methodology, computer code, documentation and dataset are available in the online supplements

Insulin secretory granules labelled with phogrin-fluorescent proteins show alterations in size, mobility and responsiveness to glucose stimulation in living β-cells

The intracellular life of insulin secretory granules (ISGs) from biogenesis to secretion depends on their structural (e.g. size) and dynamic (e.g. diffusivity, mode of motion) properties. Thus, it would be useful to have rapid and robust measurements of such parameters in living β-cells. To provide such measurements, we have developed a fast spatiotemporal fluctuation spectroscopy. We calculate an imaging-derived Mean Squared Displacement (iMSD), which simultaneously provides the size, average diffusivity, and anomalous coefficient of ISGs, without the need to extract individual trajectories. Clustering of structural and dynamic quantities in a multidimensional parametric space defines the ISGs’ properties for different conditions. First, we create a reference using INS-1E cells expressing proinsulin fused to a fluorescent protein (FP) under basal culture conditions and validate our analysis by testing well-established stimuli, such as glucose intake, cytoskeleton disruption, or cholesterol overload. After, we investigate the effect of FP-tagged ISG protein markers on the structural and dynamic properties of the granule. While iMSD analysis produces similar results for most of the lumenal markers, the transmembrane marker phogrin-FP shows a clearly altered result. Phogrin overexpression induces a substantial granule enlargement and higher mobility, together with a partial de-polymerization of the actin cytoskeleton, and reduced cell responsiveness to glucose stimulation. Our data suggest a more careful interpretation of many previous ISG-based reports in living β-cells. The presented data pave the way to high-throughput cell-based screening of ISG structure and dynamics under various physiological and pathological conditions

Personal Wayfinding Assistance

We are traveling many different routes every day. In familiar environments it is easy for us to find our ways. We know our way from bedroom to kitchen, from home to work, from parking place to office, and back home at the end of the working day. We have learned these routes in the past and are now able to find our destination without having to think about it. As soon as we want to find a place beyond the demarcations of our mental map, we need help. In some cases we ask our friends to explain us the way, in other cases we use a map to find out about the place. Mobile phones are increasingly equipped with wayfinding assistance. These devices are usually at hand because they are handy and small, which enables us to get wayfinding assistance everywhere where we need it. While the small size of mobile phones makes them handy, it is a disadvantage for displaying maps. Geographic information requires space to be visualized in order to be understandable. Typically, not all information displayed in maps is necessary. An example are walking ways in parks for car drivers, they are they are usually no relevant route options. By not displaying irrelevant information, it is possible to compress the map without losing important information. To reduce information purposefully, we need information about the user, the task at hand, and the environment it is embedded in. In this cumulative dissertation, I describe an approach that utilizes the prior knowledge of the user to adapt maps to the to the limited display options of mobile devices with small displays. I focus on central questions that occur during wayfinding and relate them to the knowledge of the user. This enables the generation of personal and context-specific wayfinding assistance in the form of maps which are optimized for small displays. To achieve personalized assistance, I present algorithmic methods to derive spatial user profiles from trajectory data. The individual profiles contain information about the places users regularly visit, as well as the traveled routes between them. By means of these profiles it is possible to generate personalized maps for partially familiar environments. Only the unfamiliar parts of the environment are presented in detail, the familiar parts are highly simplified. This bears great potential to minimize the maps, while at the same time preserving the understandability by including personally meaningful places as references. To ensure the understandability of personalized maps, we have to make sure that the names of the places are adapted to users. In this thesis, we study the naming of places and analyze the potential to automatically select and generate place names. However, personalized maps only work for environments the users are partially familiar with. If users need assistance for unfamiliar environments, they require complete information. In this thesis, I further present approaches to support uses in typical situations which can occur during wayfinding. I present solutions to communicate context information and survey knowledge along the route, as well as methods to support self-localization in case orientation is lost

Visualization and exploratory analysis of epidemiologic data using a novel space time information system

Abstract Background Recent years have seen an expansion in the use of Geographic Information Systems (GIS) in environmental health research. In this field GIS can be used to detect disease clustering, to analyze access to hospital emergency care, to predict environmental outbreaks, and to estimate exposure to toxic compounds. Despite these advances the inability of GIS to properly handle temporal information is increasingly recognised as a significant constraint. The effective representation and visualization of both spatial and temporal dimensions therefore is expected to significantly enhance our ability to undertake environmental health research using time-referenced geospatial data. Especially for diseases with long latency periods (such as cancer) the ability to represent, quantify and model individual exposure through time is a critical component of risk estimation. In response to this need a STIS – a Space Time Information System has been developed to visualize and analyze objects simultaneously through space and time. Results In this paper we present a "first use" of a STIS in a case-control study of the relationship between arsenic exposure and bladder cancer in south eastern Michigan. Individual arsenic exposure is reconstructed by incorporating spatiotemporal data including residential mobility and drinking water habits. The unique contribution of the STIS is its ability to visualize and analyze residential histories over different temporal scales. Participant information is viewed and statistically analyzed using dynamic views in which values of an attribute change through time. These views include tables, graphs (such as histograms and scatterplots), and maps. In addition, these views can be linked and synchronized for complex data exploration using cartographic brushing, statistical brushing, and animation. Conclusion The STIS provides new and powerful ways to visualize and analyze how individual exposure and associated environmental variables change through time. We expect to see innovative space-time methods being utilized in future environmental health research now that the successful "first use" of a STIS in exposure reconstruction has been accomplished.http://deepblue.lib.umich.edu/bitstream/2027.42/112824/1/12942_2004_Article_41.pd

Multivesicular exocytosis in rat pancreatic beta cells

AIMS/HYPOTHESIS: To establish the occurrence, modulation and functional significance of compound exocytosis in insulin-secreting beta cells. METHODS: Exocytosis was monitored in rat beta cells by electrophysiological, biochemical and optical methods. The functional assays were complemented by three-dimensional reconstruction of confocal imaging, transmission and block face scanning electron microscopy to obtain ultrastructural evidence of compound exocytosis. RESULTS: Compound exocytosis contributed marginally (<5% of events) to exocytosis elicited by glucose/membrane depolarisation alone. However, in beta cells stimulated by a combination of glucose and the muscarinic agonist carbachol, 15-20% of the release events were due to multivesicular exocytosis, but the frequency of exocytosis was not affected. The optical measurements suggest that carbachol should stimulate insulin secretion by ∼40%, similar to the observed enhancement of glucose-induced insulin secretion. The effects of carbachol were mimicked by elevating [Ca(2+)](i) from 0.2 to 2 μmol/l Ca(2+). Two-photon sulforhodamine imaging revealed exocytotic events about fivefold larger than single vesicles and that these structures, once formed, could persist for tens of seconds. Cells exposed to carbachol for 30 s contained long (1-2 μm) serpentine-like membrane structures adjacent to the plasma membrane. Three-dimensional electron microscopy confirmed the existence of fused multigranular aggregates within the beta cell, the frequency of which increased about fourfold in response to stimulation with carbachol. CONCLUSIONS/INTERPRETATION: Although contributing marginally to glucose-induced insulin secretion, compound exocytosis becomes quantitatively significant under conditions associated with global elevation of cytoplasmic calcium. These findings suggest that compound exocytosis is a major contributor to the augmentation of glucose-induced insulin secretion by muscarinic receptor activation

SOLAM: A Novel Approach of Spatial Aggregation in SOLAP Systems

In the context of a data driven approach aimed to detect the real and responsible factors of the transmission of diseases and explaining its emergence or re-emergence, we suggest SOLAM (Spatial on Line Analytical Mining) system, an extension of Spatial On Line Analytical Processing (SOLAP) with Spatial Data Mining (SDM) techniques. Our approach consists of integrating EPISOLAP system, tailored for epidemiological surveillance, with spatial generalization method allowing the predictive evaluation of health risk in the presence of hazards and awareness of the vulnerability of the exposed population. The proposed architecture is a single integrated decision-making platform of knowledge discovery from spatial databases. Spatial generalization methods allow exploring the data at different semantic and spatial scales while reducing the unnecessary dimensions. The principle of the method is selecting and deleting attributes of low importance in data characterization, thus produces zones of homogeneous characteristics that will be merged

A Conceptual View on Trajectories

Analysis of trajectory data is the key to a growing number of applications aiming at global understanding and management of complex phenomena that involve moving objects (e.g. worldwide courier distribution, city traffic management, bird migration monitoring). Current DBMS support for such data is limited to the ability to store and query raw movement (i.e. the spatio-temporal position of an object). This paper explores how conceptual modeling could provide applications with direct support of trajectories (i.e. movement data that is structured into countable semantic units) as a first class concept. A specific concern is to allow enriching trajectories with semantic annotations allowing users to attach semantic data to specific parts of the trajectory. Building on a preliminary requirement analysis and an application example, the paper proposes two modeling approaches, one based on a design pattern, the other based on dedicated data types, and illustrates their differences in terms of implementation in an extended-relational context

Gerenciamento de restrições de integridade para dados geoespaciais multi-escala

Orientador: Claudia Maria Bauzer MedeirosDissertação (mestrado) - Universidade Estadual de Campinas, Instituto de ComputaçãoResumo: Trabalhar em questões relativas a dados geoespaciais presentes em múltiplas escalas apresenta inúmeros desafios que têm sido atacados pelos pesquisadores da área de GIS (Sistemas de Informação Geográfica). De fato, um dado problema do mundo real deve frequentemente ser estudado em escalas distintas para ser resolvido. Outro fator a ser considerado é a possibilidade de manter o histórico de mudanças em cada escala. Além disso, uma das principais metas de ambientes multi-escala _e garantir a manipulação de informações sem qualquer contradição entre suas diferentes representações. A noção de escala extrapola inclusive a questão espacial, pois se aplica também, por exemplo, _a escala temporal. Estes problemas serão analisados nesta dissertação, resultando nas seguintes contribuições: (a) proposta do modelo DBV (Database Version) multi-escala para gerenciar de forma transparente dados de múltiplas escalas sob a perspectiva de bancos de dados; (b) especificação de restrições de integridade multi-escala; (c) implementação de uma plataforma que suporte o modelo e as restrições, testados com dados reais multi-escalaAbstract: Work on multi-scale issues concerning geospatial data presents countless challenges that have been long attacked by GIScience (Geographic Information Science) researchers. Indeed, a given real world problem must often be studied at distinct scales in order to be solved. Another factor to be considered is the possibility of maintaining the history of changes at each scale. Moreover, one of the main goals of multi-scale environments is to guarantee the manipulation of information without any contradiction among the different representations. The concept of scale goes beyond issues of space, since it also applies, for instance, to time. These problems will be analyzed in this thesis, resulting in the following contributions: (a) the proposal of the DBV (Database Version) multi-scale model to handle data at multiple scales from a database perspective; (b) the specification of multi-scale integrity constraints; (c) the implementation of a platform to support model and constraints, tested with real multi-scale dataMestradoCiência da ComputaçãoMestre em Ciência da Computaçã

The role of geographic knowledge in sub-city level geolocation algorithms

Geolocation of microblog messages has been largely investigated in the lit- erature. Many solutions have been proposed that achieve good results at the city-level. Existing approaches are mainly data-driven (i.e., they rely on a training phase). However, the development of algorithms for geolocation at sub-city level is still an open problem also due to the absence of good training datasets. In this thesis, we investigate the role that external geographic know- ledge can play in geolocation approaches. We show how di)erent geographical data sources can be combined with a semantic layer to achieve reasonably accurate sub-city level geolocation. Moreover, we propose a knowledge-based method, called Sherloc, to accurately geolocate messages at sub-city level, by exploiting the presence in the message of toponyms possibly referring to the speci*c places in the target geographical area. Sherloc exploits the semantics associated with toponyms contained in gazetteers and embeds them into a metric space that captures the semantic distance among them. This allows toponyms to be represented as points and indexed by a spatial access method, allowing us to identify the semantically closest terms to a microblog message, that also form a cluster with respect to their spatial locations. In contrast to state-of-the-art methods, Sherloc requires no prior training, it is not limited to geolocating on a *xed spatial grid and it experimentally demonstrated its ability to infer the location at sub-city level with higher accuracy