Topological Data Analysis for Object Data

Statistical analysis on object data presents many challenges. Basic summaries such as means and variances are difficult to compute. We apply ideas from topology to study object data. We present a framework for using persistence landscapes to vectorize object data and perform statistical analysis. We apply to this pipeline to some biological images that were previously shown to be challenging to study using shape theory. Surprisingly, the most persistent features are shown to be "topological noise" and the statistical analysis depends on the less persistent features which we refer to as the "geometric signal". We also describe the first steps to a new approach to using topology for object data analysis, which applies topology to distributions on object spaces.Comment: 16 pages, 12 figure

Pan-chromatic observations of the remarkable nova LMC 2012

We present the results of an intensive multiwavelength campaign on nova LMC 2012. This nova evolved very rapidly in all observed wavelengths. The time to fall two magnitudes in the V band was only 2 days. In X-rays the super soft phase began 13$\pm$5 days after discovery and ended around day 50 after discovery. During the super soft phase, the \Swift/XRT and \Chandra\ spectra were consistent with the underlying white dwarf being very hot, $\sim$ 1 MK, and luminous, $\sim$ 10$^{38}$ erg s$^{-1}$. The UV, optical, and near-IR photometry showed a periodic variation after the initial and rapid fading had ended. Timing analysis revealed a consistent 19.24$\pm$0.03 hr period in all UV, optical, and near-IR bands with amplitudes of $\sim$ 0.3 magnitudes which we associate with the orbital period of the central binary. No periods were detected in the corresponding X-ray data sets. A moderately high inclination system, $i$ = 60$\pm$10^{\arcdeg}, was inferred from the early optical emission lines. The {\it HST}/STIS UV spectra were highly unusual with only the \ion{N}{5} (1240\AA) line present and superposed on a blue continuum. The lack of emission lines and the observed UV and optical continua from four epochs can be fit with a low mass ejection event, $\sim$ 10$^{-6}$ M$_{\odot}$, from a hot and massive white dwarf near the Chandrasekhar limit. The white dwarf, in turn, significantly illuminated its subgiant companion which provided the bulk of the observed UV/optical continuum emission at the later dates. The inferred extreme white dwarf characteristics and low mass ejection event favor nova LMC 2012 being a recurrent nova of the U Sco subclass.Comment: 18 figures, 6 tables (one online only containing all the photometry

Testing and comparing two self-care-related instruments among older Chinese adults

Objectives The study aimed to test and compare the reliability and validity, including sensitivity and specificity of the two self-care-related instruments, the Self-care Ability Scale for the Elderly (SASE), and the Appraisal of Self-care Agency Scale-Revised (ASAS-R), among older adults in the Chinese context. Methods A cross-sectional design was used to conduct this study. The sample consisted of 1152 older adults. Data were collected by a questionnaire including the Chinese version of SASE (SASE-CHI), the Chinese version of ASAS-R (ASAS-R-CHI) and the Exercise of Self-Care Agency scale (ESCA). Homogeneity and stability, content, construct and concurrent validity, and sensitivity and specificity were assessed. Results The Cronbach's alpha (α) of SASE-CHI was 0.89, the item-to-total correlations ranged from r = 0.15 to r = 0.81, and the test-retest correlation coefficient (intra-class correlation coefficient, ICC) was 0.99 (95% CI, 0.99±1.00; P<0.001). The Cronbach's α of ASAS-R-CHI was 0.78, the item-to-total correlations ranged from r = 0.20 to r = 0.65, and the test-retest ICC was 0.95 (95% CI, 0.92±0.96; P<0.001). The content validity index (CVI) of SASE-CHI and ASAS-R-CHI was 0.96 and 0.97, respectively. The findings of exploratory and confirmatory factor analyses (EFA and CFA) confirmed a good construct validity of SASE-CHI and ASAS-R-CHI. The Pearson's rank correlation coefficients, as a measure of concurrent validity, between total score of SASE-CHI and ESCA and ASAS-R-CHI and ESCA were assessed to 0.65 (P<0.001) and 0.62 (P<0.001), respectively. Regarding ESCA as the criterion, the area under the receiver operator characteristic (ROC) curve for the cut-point of SASE-CHI and ASAS-R-CHI were 0.93 (95% CI, 0.91±0.94) and 0.83 (95% CI, 0.80±0.86), respectively. Conclusion There is no significant difference between the two instruments. Each has its own characteristics, but SASE-CHI is more suitable for older adults. The key point is that the users can choose the most appropriate scale according to the specific situation.publishedVersionNivå

Redshift Filtering by Swift Apparent X-ray Column Density

We remark on the utility of an observational relation between the absorption column density in excess of the Galactic absorption column density, $\Delta N_{\rm H} = N_{\rm H, fit} - N_{\rm H, gal}$, and redshift, z, determined from all 55 Swift-observed long bursts with spectroscopic redshifts as of 2006 December. The absorption column densities, $N_{\rm H, fit}$, are determined from powerlaw fits to the X-ray spectra with the absorption column density left as a free parameter. We find that higher excess absorption column densities with $\Delta N_{\rm H} > 2\times 10^{21}$ cm$^{-2}$ are only present in bursts with redshifts z$<$2. Low absorption column densities with $\Delta N_{\rm H} < 1\times 10^{21}$ cm$^{-2}$ appear preferentially in high-redshift bursts. Our interpretation is that this relation between redshift and excess column density is an observational effect resulting from the shift of the source rest-frame energy range below 1 keV out of the XRT observable energy range for high redshift bursts. We found a clear anti-correlation between $\Delta N_{\rm H}$ and z that can be used to estimate the range of the maximum redshift of an afterglow. A critical application of our finding is that rapid X-ray observations can be used to optimize the instrumentation used for ground-based optical/NIR follow-up observations. Ground-based spectroscopic redshift measurements of as many bursts as possible are crucial for GRB science.Comment: revised version including updates and the referee's comments, accepted for publication in the Astronomical Journal, 12 pages, 2 figures, 2 tables - v3 contains an update on the reference lis

GRB 060313: A New Paradigm for Short-Hard Bursts?

We report the simultaneous observations of the prompt emission in the gamma-ray and hard X-ray bands by the Swift-BAT and the KONUS-Wind instruments of the short-hard burst, GRB 060313. The observations reveal multiple peaks in both the gamma-ray and hard X-ray bands suggesting a highly variable outflow from the central explosion. We also describe the early-time observations of the X-ray and UV/Optical afterglows by the Swift XRT and UVOT instruments. The combination of the X-ray and UV/Optical observations provide the most comprehensive lightcurves to date of a short-hard burst at such an early epoch. The afterglows exhibit complex structure with different decay indices and flaring. This behavior can be explained by the combination of a structured jet, radiative loss of energy, and decreasing microphysics parameters occurring in a circum-burst medium with densities varying by a factor of approximately two on a length scale of 10^17 cm. These density variations are normally associated with the environment of a massive star and inhomogeneities in its windy medium. However, the mean density of the observed medium (n approximately 10^&#8722;4 cm^3) is much less than that expected for a massive star. Although the collapse of a massive star as the origin of GRB 060313 is unlikely, the merger of a compact binary also poses problems for explaining the behavior of this burst. Two possible suggestions for explaining this scenario are: some short bursts may arise from a mechanism that does not invoke the conventional compact binary model, or soft late-time central engine activity is producing UV/optical but no X-ray flaring.Comment: 28 pages, 6 figures. Accepted for publication in ApJ. Clarifications made and typos correcte

Lack of Serologic Evidence of Neospora caninum in Humans, England

Retrospective testing of 3,232 serum samples from the general population and 518 serum samples from a high-risk group showed no evidence of human exposure to Neospora caninum in England. Results were obtained by using immunofluorescence antibody testing and ELISA to analyze frequency distribution

Myc dynamically and preferentially relocates to a transcription factory occupied by Igh.

Transcription in mammalian nuclei is highly compartmentalized in RNA polymerase II-enriched nuclear foci known as transcription factories. Genes in cis and trans can share the same factory, suggesting that genes migrate to preassembled transcription sites. We used fluorescent in situ hybridization to investigate the dynamics of gene association with transcription factories during immediate early (IE) gene induction in mouse B lymphocytes. Here, we show that induction involves rapid gene relocation to transcription factories. Importantly, we find that the Myc proto-oncogene on Chromosome 15 is preferentially recruited to the same transcription factory as the highly transcribed Igh gene located on Chromosome 12. Myc and Igh are the most frequent translocation partners in plasmacytoma and Burkitt lymphoma. Our results show that transcriptional activation of IE genes involves rapid relocation to preassembled transcription factories. Furthermore, the data imply a direct link between the nonrandom interchromosomal organization of transcribed genes at transcription factories and the incidence of specific chromosomal translocations

Prediction of Evapotranspiration in a Mediterranean Region Using Basic Meteorological Variables

A critical need for farmers, particularly those in arid and semiarid areas is to have a reliable, accurate and reasonably accessible means of estimating the evapotranspiration rates of their crops to optimize their irrigation requirements. Evapotranspiration is a crucial process because of its influence on the precipitation that is returned to the atmosphere. The calculation of this variable often starts from the estimation of reference evapotranspiration, for which a variety of methods have been developed. However, these methods are very complex either theoretically and/or because of the large amount of parameters on which they are based, which makes the development of a simple and reliable methodology for the prediction of this variable important. This research combined three concepts such as cluster analysis, multiple linear regression (MLR), and Voronoi diagrams to achieve that end. Cluster analysis divided the study area into groups based on its weather characteristics, whose locations were then delimited by drawing the Voronoi regions associated with them. Regression equations were built to predict daily reference evapotranspiration in each cluster using basic climate variables produced in forecasts made by meteorological agencies. Finally, the Voronoi diagrams were used again to regionalize the crop coefficients and calculate evapotranspiration from the values of reference evapotranspiration derived from the regression models. These operations were applied to the Valencian region (Spain), a Mediterranean area which is partly semiarid and for which evapotranspiration is a critical issue. The results demonstrated the usefulness and accuracy of the methodology to predict the water demands of crops and hence enable farmers to plan their irrigation needs.This paper was possible thanks to the research project RHIVU (Ref. BIA2012-32463), financed by the Spanish Ministry of Economy and Competitiveness with funds from the State General Budget (PGE) and the European Regional Development Fund (ERDF). The authors also wish to express their gratitude to the Spanish Ministry of Agriculture, Food and Environment (MAGRAMA) for providing the data necessary to develop this study

Comment on "The extent of forest in dryland biomes"

Bastin et al (Reports, 12 May 2017, p. 635) infer forest as more globally extensive than previously estimated using tree cover data. However, their forest definition does not reflect ecosystem function or biotic composition. These structural and climatic definitions inflate forest estimates across the tropics and undermine conservation goals, leading to inappropriate management policies and practices in tropical grassy ecosystems