Representing and Understanding Non-Manifold Objects

Solid Modeling is a well-established field. The significance of the contributions of this field is visible in the availability of abundant commercial and free modeling tools for the applications of CAD, animation, visualization etc. There are various approaches to modeling shapes. A common problem to all of them however, is the handling of non-manifold shapes. Manifold shapes are shapes with the property of topological ``smoothness'' at the local neighbourhood of every point. Objects that contain one or more points that lack this smoothness are all considered non-manifold. Non-manifold objects form a huge catagory of shapes. In the field of solid modeling, solutions typically limit the application domain to manifold shapes. Where the occurrence of non-manifold shapes is inevitable, they are often processed at a high cost. The lack of understanding on the nature of non-manifold shapes is the main cause of it. There is a tremendous gap between the well-established mathematical theories in topology and the materialization of such knowledge in the discrete combinatorial domain of computer science and engineering. The motivation of this research is to bridge this gap between the two. We present a characterization of non-manifoldness in 3D simplicial shapes. Based on this characterization, we propose data structures to address the applicational needs for the representation of 3D simplicial complexes with mixed dimensions and non-manifold connectivities, which is an area that is greatly lacking in the literature. The availability of a suitable data structure makes the structural analysis of non-manifold shapes feasible. We address the problem of non-manifold shape understanding through a structural analysis that is based on decomposition

Water and Energy Conservation for Fideicomiso

The Conservation Trust of Puerto Rico owns two historic buildings that are not energy and water efficient. Desiring to be a role model of energy and water conservation, the Trust wants to renovate them. The goal of this project was to recommend cost- effective renovations to increase energy and water efficiency while preserving each building\u27s historic character. Through observations, archival research and interviews, we determined the potential areas for energy and water conservation and methods for educating the public

Topological Decompositions for 3D Non-manifold Simplicial Shapes

Modeling and understanding complex non-manifold shapes is a key issue in several applications including form-feature identification in CAD/CAE, and shape recognition for Web searching. Geometric shapes are commonly discretized as simplicial 2- or 3-complexes embedded in the 3D Euclidean space. The topological structure of a non-manifold simplicial shape can be analyzed through its decomposition into a collection of components with simpler topology. The granularity of the decomposition depends on the combinatorial complexity of the components. In this paper, we present topological tools for structural analysis of three-dimensional non-manifold shapes. This analysis is based on a topological decomposition at two different levels. We discuss the topological properties of the components at each level, and we present algorithms for computing such decompositions. We investigate the relations among the components, and propose a graph-based representation for such relations

A dimension-independent simplicial data structure for non-manifold shapes

We consider the problem of representing and manipulating non-manifold multi-dimensional shapes, discretized as $d$-dimensional simplicial Euclidean complexes, for modeling finite element meshes derived from CAD models. We propose a dimension-independent data structure for simplicial complexes, that we call the {\em Incidence Simplicial (IS)} data structure. The IS data structure is scalable to manifold complexes, and supports efficient traversal and update algorithms for performing topological modifications, such as hole removal or dimension reduction. It has the same expressive power and performances as the incidence graph, commonly used for dimension-independent representation of simplicial and cell complexes, but it is much more compact. We present efficient algorithms for traversing, generating and updating a simplicial complex described as an IS data structure. We compare the IS data structure with dimension-independent and dimension-specific representations for simplicial complexes. Finally, we briefly discuss two applications that the IS data structure supports, namely decomposition of non-manifold objects for effective geometric reasoning, and multi-resolution modeling of non-manifold multi-dimensional shapes

Evaluation of click chemistry microarrays for immunosensing of alpha-fetoprotein (AFP)

The level of cancer biomarkers in cells, tissues or body fluids can be used for the prediction of the presence of cancer or can even indicate the stage of the disease. Alpha-fetoprotein (AFP) is the most commonly used biomarker for early screening and diagnosis of hepatocellular carcinoma (HCC). Here, a combination of three techniques (click chemistry, the biotin–streptavidin–biotin sandwich strategy and the use of antigen–antibody interactions) were combined to implement a sensitive fluorescent immunosensor for AFP detection. Three types of functionalized glasses (dibenzocyclooctyne- (DBCO-), thiol- and epoxy-terminated surfaces) were biotinylated by employing the respective adequate click chemistry counterparts (biotin–thiol or biotin–azide for the first class, biotin–maleimide or biotin–DBCO for the second class and biotin–amine or biotin–thiol for the third class). The anti-AFP antibody was immobilized on the surfaces via a biotin–streptavidin–biotin sandwich technique. To evaluate the sensing performance of the differently prepared surfaces, fluorescently labeled AFP was spotted onto them via microchannel cantilever spotting (µCS). Based on the fluorescence measurements, the optimal microarray design was found and its sensitivity was determined

Multi-dimensional aspects of poverty and their linkages amongst squatters in Kampong Baru Stutong, Tabuan Jaya, Kuching / Wee Chong Hui, Rosita Suhaimi and Annie Wong Muk Ngiik

This is a study on a multi-dimensional aspects of poverty. It attempts to find out the linkages amongst squatters in Kampong Baru, Kuching and their relationships with expenditure, nutrition, housing and access to piped water, electricity, sewage and income

Shared Mycobacterium avium Genotypes Observed among Unlinked Clinical and Environmental Isolates

Our understanding of the sources of Mycobacterium avium infection is partially based on genotypic matching of pathogen isolates from cases and environmental sources. These approaches assume that genotypic identity is rare in isolates from unlinked cases or sources. To test this assumption, a high-resolution PCR-based genotyping approach, large-sequence polymorphism (LSP)-mycobacterial interspersed repetitive unit–variable-number tandem repeat (MIRU-VNTR), was selected and used to analyze clinical and environmental isolates of M. avium from geographically diverse sources. Among 127 clinical isolates from seven locations in North America, South America, and Europe, 42 genotypes were observed. Among 12 of these genotypes, matches were seen in isolates from apparently unlinked patients in two or more geographic locations. Six of the 12 were also observed in environmental isolates. A subset of these isolates was further analyzed by alternative strain genotyping methods, pulsed-field gel electrophoresis and MIRU-VNTR, which confirmed the existence of geographically dispersed strain genotypes. These results suggest that caution should be exercised in interpreting high-resolution genotypic matches as evidence for an acquisition event

Targeted Metabolomics Analysis of Campylobacter coli VC167 Reveals Legionaminic Acid Derivatives as Novel Flagellar Glycans

Glycosylation of Campylobacter flagellin is required for the biogenesis of a functional flagella filament. Recently, we used a targeted metabolomics approach using mass spectrometry and NMR to identify changes in the metabolic profile of wild type and mutants in the flagellar glycosylation locus, characterize novel metabolites, and assign function to genes to define the pseudaminic acid biosynthetic pathway in Campylobacter jejuni 81-176 (McNally, D. J., Hui, J. P., Aubry, A. J., Mui, K. K., Guerry, P., Brisson, J. R., Logan, S. M., and Soo, E. C. (2006) J. Biol. Chem. 281, 18489-18498). In this study, we use a similar approach to further define the glycome and metabolomic complement of nucleotide-activated sugars in Campylobacter coli VC167. Herein we demonstrate that, in addition to CMP-pseudaminic acid, C. coli VC167 also produces two structurally distinct nucleotide-activated nonulosonate sugars that were observed as negative ions at m/z 637 and m/z 651 (CMP-315 and CMP-329). Hydrophilic interaction liquid chromatography-mass spectrometry yielded suitable amounts of the pure sugar nucleotides for NMR spectroscopy using a cold probe. Structural analysis in conjunction with molecular modeling identified the sugar moieties as acetamidino and N-methylacetimidoyl derivatives of legionaminic acid (Leg5Am7Ac and Leg5AmNMe7Ac). Targeted metabolomic analyses of isogenic mutants established a role for the ptmA-F genes and defined two new ptm genes in this locus as legionaminic acid biosynthetic enzymes. This is the first report of legionaminic acid in Campylobacter sp. and the first report of legionaminic acid derivatives as modifications on a protein

Wave statistics and energy dissipation of shallow-water breaking waves in a tank with a level bottom

The present study focuses on two-dimensional direct numerical simulations of shallow-water breaking waves, specifically those generated by a wave plate at constant water depths. The primary objective is to quantitatively analyse the dynamics, kinematics and energy dissipation associated with wave breaking. The numerical results exhibit good agreement with experimental data in terms of free-surface profiles during wave breaking. A parametric study was conducted to examine the influence of various wave properties and initial conditions on breaking characteristics. According to research on the Bond number ( $Bo$ , the ratio of gravitational to surface tension forces), an increased surface tension leads to the formation of more prominent parasitic capillaries at the forwards face of the wave profile and a thicker plunging jet, which causes a delayed breaking time and is tightly correlated with the main cavity size. A close relationship between wave statistics and the initial conditions of the wave plate is discovered, allowing for the classification of breaker types based on the ratio of wave height to water depth, $H/d$ . Moreover, an analysis based on inertial scaling arguments reveals that the energy dissipation rate due to breaking can be linked to the local geometry of the breaking crest $H_b/d$ , and exhibits a threshold behaviour, where the energy dissipation approaches zero at a critical value of $H_b/d$ . An empirical scaling of the breaking parameter is proposed as $b = a(H_b/d - \chi _0)^n$ , where $\chi _0 = 0.65$ represents the breaking threshold and $n = 1.5$ is a power law determined through the best fit to the numerical results