Persistent homology in two-dimensional atomic networks

The topology of two-dimensional network materials is investigated by persistent homology analysis. The constraint of two dimensions allows for a direct comparison of key persistent homology metrics (persistence diagrams, cycles, Betti numbers) with more traditional metrics such as the ring-size distributions. Two different types of networks are employed in which the topology is manipulated systematically. In the first, comparatively rigid networks are generated for a triangle-raft model, which are representative of materials such as silica bilayers. In the second, more flexible networks are generated using a bond-switching algorithm, which are representative of materials such as graphene. Bands are identified in the persistence diagrams by reference to the length-scales associated with distorted polygons. The triangle-raft models with the largest ordering allow specific bands Bn (n = 1, 2, 3,. . .) to be allocated to configurations of atoms separated by n bonds. The persistence diagrams for the more disordered network models also display bands albeit less pronounced. The persistent homology method thereby provides information on n-body correlations that is not accessible from structure factors or radial distribution functions. An analysis of the persistent cycles gives the primitive ring statistics, provided the level of disorder is not too large. The method also gives information on the regularity of rings that is unavailable from a ring-statistics analysis. The utility of the persistent homology method is demonstrated by its application to experimentally-obtained configurations of silica bilayers and graphene

Production of metal-free diamond nanoparticles

In this paper, the controlled production of high-quality metal-free diamond nanoparticles is demonstrated. Milling with tempered steel is shown to leave behind iron oxide contamination which is difficult to remove. Milling with SiN alleviates this issue but generates more nondiamond carbon. Thus, the choice of milling materials is critically determined by the acceptable contaminants in the ultimate application. The removal of metal impurities, present in all commercially available nanoparticles, will open new possibilities toward the production of customized diamond nanoparticles, covering the most demanding quantum applications

Long-term, multiwavelength light curves of ultra-cool dwarfs: I. An interplay of starspots & clouds likely drive the variability of the L3. 5 dwarf 2MASS 0036+ 18

We present multi-telescope, ground-based, multiwavelength optical and near-infrared photometry of the variable L3.5 ultra-cool dwarf 2MASSW J0036159+182110. We present 22 nights of photometry of 2MASSW J0036159+182110, including 7 nights of simultaneous, multiwavelength photometry, spread over ∼120 days allowing us to determine the rotation period of this ultra-cool dwarf to be 3.080 ± 0.001 hr. Our many nights of multiwavelength photometry allow us to observe the evolution, or more specifically the lack thereof, of the light curve over a great many rotation periods. The lack of discernible phase shifts in our multiwavelength photometry, and that the amplitude of variability generally decreases as one moves to longer wavelengths for 2MASSW J0036159+182110, is generally consistent with starspots driving the variability on this ultra-cool dwarf, with starspots that are ∼100 degrees K hotter or cooler than the ∼1700 K photosphere. Also, reasonably thick clouds are required to fit the spectra of 2MASSW J0036159+182110, suggesting there likely exists some complex interplay between the starspots driving the variability of this ultra-cool dwarf and the clouds that appear to envelope this ultra-cool dwarf.https://arxiv.org/pdf/1609.03586.pdfFirst author draf

Pleasure and meaningful discourse: an overview of research issues

The concept of pleasure has emerged as a multi-faceted social and cultural phenomenon in studies of media audiences since the 1980s. In these studies different forms of pleasure have been identified as explaining audience activity and commitment. In the diverse studies pleasure has emerged as a multi-faceted social and cultural concept that needs to be contextualized carefully. Genre and genre variations, class, gender, (sub-)cultural identity and generation all seem to be instrumental in determining the kind and variety of pleasures experienced in the act of viewing. This body of research has undoubtedly contributed to a better understanding of the complexity of audience activities, but it is exactly the diversity of the concept that is puzzling and poses a challenge to its further use. If pleasure is maintained as a key concept in audience analysis that holds much explanatory power, it needs a stronger theoretical foundation. The article maps the ways in which the concept of pleasure has been used by cultural theorists, who have paved the way for its application in reception analysis, and it goes on to explore the ways in which the concept has been used in empirical studies. Central to our discussion is the division between the ‘public knowledge’ and the ‘popular culture’ projects in reception analysis which, we argue, have major implications for the way in which pleasure has come to be understood as divorced from politics, power and ideology. Finally, we suggest ways of bridging the gap between these two projects in an effort to link pleasure to the concepts of hegemony and ideology

In Vitro Gene Expression Dissected: Chemostat Surgery for Mycobacterium Tuberculosis

A unique approach, combining defined and reproducible in vitro models with DNA microarrays, has been developed to study environmental modulation of mycobacterial gene expression. The gene expression profiles of samples of Mycobacterium tuberculosis, from independent chemostat cultures grown under defined and reproducible conditions, were found to be highly correlated. This approach is now being used to study the effect of relevant stimuli, such as limited oxygen availability, on mycobacterial gene expression. A modification of the chemostat culture system, enabling largevolume controlled batch culture, has been developed to study starvation survival. Cultures of M. tuberculosis have been maintained under nutrient-starved conditions for extended periods, with 106 – 107 bacilli surviving in a culturable state after 100 days. The design of the culture system has made it possible to control the environment and collect multiple time-course samples to study patterns of gene expression. These studies demonstrate that it is possible to perform long-term studies and obtain reproducible expression data using controlled and defined in vitro models

A Study of the Diverse T Dwarf Population Revealed by WISE

We report the discovery of 87 new T dwarfs uncovered with the Wide-field Infrared Survey Explorer (WISE) and three brown dwarfs with extremely red near-infrared colors that exhibit characteristics of both L and T dwarfs. Two of the new T dwarfs are likely binaries with L7+/-1 primaries and mid-type T secondaries. In addition, our follow-up program has confirmed 10 previously identified T dwarfs and four photometrically-selected L and T dwarf candidates in the literature. This sample, along with the previous WISE discoveries, triples the number of known brown dwarfs with spectral types later than T5. Using the WISE All-Sky Source Catalog we present updated color-color and color-type diagrams for all the WISE-discovered T and Y dwarfs. Near-infrared spectra of the new discoveries are presented, along with spectral classifications. To accommodate later T dwarfs we have modified the integrated flux method of determining spectral indices to instead use the median flux. Furthermore, a newly defined J-narrow index differentiates the early-type Y dwarfs from late-type T dwarfs based on the J-band continuum slope. The K/J indices for this expanded sample show that 32% of late-type T dwarfs have suppressed K-band flux and are blue relative to the spectral standards, while only 11% are redder than the standards. Comparison of the Y/J and K/J index to models suggests diverse atmospheric conditions and supports the possible re-emergence of clouds after the L/T transition. We also discuss peculiar brown dwarfs and candidates that were found not to be substellar, including two Young Stellar Objects and two Active Galactic Nuclei. The coolest WISE-discovered brown dwarfs are the closest of their type and will remain the only sample of their kind for many years to come.Comment: Accepted to ApJS on 15 January 2013; 99 pages in preprint format, 30 figures, 12 table

Modulation of the Cellular Expression of Circulating Advanced Glycation End-Product Receptors in Type 2 Diabetic Nephropathy

Background. Advanced glycation end-products (AGEs) and their receptors are prominent contributors to diabetic kidney disease. Methods. Flow cytometry was used to measure the predictive capacity for kidney impairment of the AGE receptors RAGE, AGE-R1, and AGE-R3 on peripheral blood mononuclear cells (PBMCs) in experimental models of type 2 diabetes (T2DM) fed varied AGE containing diets and in obese type 2 diabetic and control human subjects. Results. Diets high in AGE content fed to diabetic mice decreased cell surface RAGE on PBMCs and in type 2 diabetic patients with renal impairment (RI). All diabetic mice had elevated Albumin excretion rates (AERs), and high AGE fed dbdb mice had declining Glomerular filtration rate (GFR). Cell surface AGE-R1 expression was also decreased by high AGE diets and with diabetes in dbdb mice and in humans with RI. PBMC expression of AGE R3 was decreased in diabetic dbdb mice or with a low AGE diet. Conclusions. The most predictive PBMC profile for renal disease associated with T2DM was an increase in the cell surface expression of AGE-R1, in the context of a decrease in membranous RAGE expression in humans, which warrants further investigation as a biomarker for progressive DN in larger patient cohorts

Spatial characteristics of the fungus powdery mildew (Erysiphe neolycopersici) on tomatoes and its spread in industrial greenhouses

In regions with cool temperate climates, tomatoes are grown on an industrial scale in large greenhouses. There the crops are susceptible to infection by powdery mildew, the fungus Erysiphe neolycopersici, which is introduced largely as fungal spores from outside the greenhouses and spread by wind within them. We have monitored the spread of the disease and mapped its distribution in four commercial greenhouses throughout the growing season to understand its aetiology. We modelled the patterns of infection geostatistically, each comprising a deterministic long-range trend plus a short-range spatially correlated random residual. We identified three main kinds of pattern; one consisted of a constant plus a spatially correlated residual, second comprised a linear trend throughout the greenhouse plus a correlated random residual, and third, the trend had the form of a bell akin to a Gaussian surface plus, again, a correlated random residual. Here, we show three examples of these distributions and the detail of their geostatistical analysis using both the traditional method of moments (MoM) estimation of variograms and residual maximum likelihood (REML) to separate the deterministic and random components. The analytical modelling is followed by ordinary punctual kriging in the first case, by universal kriging in the second, and by regression kriging in the third case to display the infection as isarithmic ("contour") maps. We interpret the first form of distribution as arising from numerous foci as spores landed on the leaves from various sources spread by air currents and the movement of workers along the paths through the greenhouse. In the second case, the disease seemed to have spread from an infection introduced through the main door in one corner of the greenhouse and spread from there by the workers and air currents. The third infection arose near the centre of the greenhouse by the main path and spread outwards from there. In all three examples, the main pathways seemed important routes along which the fungus spread

A case of advanced infantile myofibromatosis harboring a novel MYH10‐RET fusion

Peer Reviewedhttps://deepblue.lib.umich.edu/bitstream/2027.42/137282/1/pbc26377_am.pdfhttps://deepblue.lib.umich.edu/bitstream/2027.42/137282/2/pbc26377.pdfhttps://deepblue.lib.umich.edu/bitstream/2027.42/137282/3/pbc26377-sup-0002-text.pd