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At least 1,081 records · Page 60Linked to original sources
PubMed1983

[Conformation NMR analysis of the spatial structure of Buthus eupeus insectotoxin I5A].

1H NMR spectroscopy has been used to collect data related to the spatial structure of insectotoxin I5A Buthus eupeus: pH-dependence of the chemical shifts, deuterium exchange rates of individual amide hydrogens, spin-spin coupling of the H-N-C alpha-H and H-C alpha-C beta-H protons, and nuclear Overhauser effect between distinct protons belonging to amino acid residues remote in the sequence. Molecular conformation in the regions from Asp9 to Cys19 (beta-turn 9-12 and right-hand alpha-helix 12-19) and from Asn23 to Asn34 (antiparallel beta-sheet with the beta-turn 27-30) directly follows from the observed parameters. Pseudoatomic approach of distance geometry algorithm was used to solve the overall folding of the molecule and propose the most probable set of disulfide bridges: Cys2-Cys19, Cys5-Cys31, Cys16-Cys26 and Cys20-Cys33. The spatial structure of insectotoxin I5A B. eupeus demonstrates remarkable similarity with that of a "long" type scorpion neurotoxin V-3 Centruroides sculpturatus.

Amino Acid Sequence↗
PubMedDate not supplied

[Analysis of the spatial structure of proteins in terms of residue-residue contacts. II. Contact affinity].

The possibility of detecting the mutual amino acid residue affinity when protein three-dimensional structures are described in terms of residue-residue contact matrices is discussed. The hypothesis of the lack of affinity between amino acid residues is examined; the values of the pertinent elements of the overall residue-residue contact matrices prove not to be statistically different from random estimates in 91%; the chance hypothesis is rejected in 9% of cases, represented as a rule by residues with charged side groups, especially oppositely charged ones.

Amino Acids↗
PubMed2002

Trends and spatial distribution of deaths of children aged 12-60 months in São Paulo, Brazil, 1980-98.

OBJECTIVE: To describe trends in the mortality of children aged 12-60 months and to perform spatial data analysis of its distribution at the inner city district level in São Paulo from 1980 to 1998. METHODS: Official mortality data were analysed in relation to the underlying causes of death. The population of children aged 12-60 months, disaggregated by sex and age, was estimated for each year. Educational levels, income, employment status, and other socioeconomic indices were also assessed. Statistical Package for Social Sciences software was used for the statistical processing of time series. The Cochrane-Orcutt procedure of generalized least squares regression analysis was used to estimate the regression parameters with control of first-order autocorrelation. Spatial data analysis employed the discrimination of death rates and socioeconomic indices at the inner city district level. For classifying area-level death rates the method of K-means cluster analysis was used. Spatial correlation between variables was analysed by the simultaneous autoregressive regression method. FINDINGS: There was a steady decline in death rates during the 1980s at an average rate of 3.08% per year, followed by a levelling off. Infectious diseases remained the major cause of mortality, accounting for 43.1% of deaths during the last three years of the study. Injuries accounted for 16.5% of deaths. Mortality rates at the area level clearly demonstrated inequity in the city's health profile: there was an increasing difference between the rich and the underprivileged social strata in this respect. CONCLUSION: The overall mortality rate among children aged 12-60 months dropped by almost 30% during the study period. Most of the decline happened during the 1980s. Many people still live in a state of deprivation in underserved areas. Time-series and spatial data analysis provided indications of potential value in the planning of social policies promoting well-being, through the identification of factors affecting child survival and the regions with the worst health profiles, to which programmes and resources should be preferentially directed.

Brazil↗
PubMed2001

Spatially resolved single bead analysis: homogeneity, diffusion, and adsorption in cross-linked polystyrene.

Spatially resolved single bead analysis in the micrometer range was employed as a tool for evaluating homogeneity, diffusion, and adsorption in solid-phase supported reactions. Fluorescence microscopy (confocal and non-confocal) as well as IR microscopy were used to detect both the distribution of products and the formation of product gradients in representative reactions. For the first time, the optical slices of whole beads obtained by confocal fluorescence microscopy were compared with the fluorescence images of microtome-sliced beads. The experiments revealed that only physical slices of polystyrene beads deliver realistic representations of the distribution of fluorophores, and confirmed-in contrast to a recent report-the homogeneity of functional site distribution in polystyrene beads. Moreover, the pattern of product formation obtained from an acylation reaction as well as from an alkylation reaction were employed as probes to study the impact of bead size, diffusion, and adsorption on the reaction progress. A simulation of the diffusion process was conducted and compared with the experimental results. Diffusional control was found neither in the case of the alkylation nor in the case of the acylation reaction under investigation. As a consequence, the reaction progress was not a function of the bead sizes as proposed in the literature. Interestingly, in the case of rhodamine acylation with substoichiometric amounts an adsorption-controlled reaction was found. This result highlights the significance of adsorptive effects in solid-phase supported chemistry.

Adsorption↗
PubMed1993

Spatial correlation in ecological analysis.

This paper presents a statistical approach, originally developed for mapping disease risk, to ecological regression analysis in the presence of spatial autocorrelated extra-Poisson variation. An insight into the effect of allowing for spatial autocorrelation on the relationship between disease rates and explanatory variables is given. Examples based on cancer frequency in Scotland and Sardinia are used to illustrate the interpretation of regression coefficient and further methodological issues.

Analysis of Variance↗
PubMed2001

Lyme disease in New York State: spatial pattern at a regional scale.

Lyme disease occurs commonly in New York State, but its geographic distribution is heterogeneous. Over each of nine consecutive years, incidence rates from 57 New York State counties were subjected to spatial autocorrelation analysis. Although the epidemic advanced during the study period, the analyses reveal a consistent pattern of spatial dependence. The correlation distance, the distance over which incidence rates covary positively, remained near 120 km over the nine years. A local spatial analysis around Westchester County, a major disease focus, indicated that the global correlation distance matched the extent of the most intense local clustering; statistically weaker clustering extended to 200 km from Westchester. Analyzing the spatial character of the epidemic may reveal the epizootic processes underlying patterns in human infection, and may help identify a spatial scale for regional control of disease.

Humans↗
PubMed1997

The combination of filters in early spatial vision: a retrospective analysis of the MIRAGE model.

Since the discovery of spatial-frequency-tuned channels in the visual system, most theories attempting to account for pattern encoding have assumed that the filters can be independently accessed and flexibly combined. We review here an alternative model, 'MIRAGE', in which the filters are inflexibly combined before pattern analysis. In the MIRAGE model the half-wave rectified outputs of all spatial-frequency channels are combined before locating spatial zero-bounded regions in the neural image, which serve as the spatial primitives for pattern analysis. We describe the evidence that led to this model, and review recent evidence on the rules of filter combination.

Humans↗
PubMed2000

UV-ozone ashing of cells and tissues for spatially resolved trace element analysis.

UV/ozone ashing of thin tissue sections and cell cultures is a simple technique to enhance relative elemental concentrations, while maintaining their spatial location at the sub-micron level. This approach may enhance the capability of spatially resolved analysis techniques to detect the distribution of trace elements in biological matrices. We present results from light microscopy and x-ray spectromicroscopy studies of tissues and cells demonstrating that the micro-structure is very well conserved. We show the signal enhancement resulting from the removal of carbon, which allows otherwise undetectable gadolinium to be mapped in cancer tissue for a novel neutron capture therapy.

Carbon↗
PubMed2025

PEELing: an integrated and user-centric platform for spatially resolved proteomics data analysis.

SUMMARY: Molecular compartmentalization is vital for cellular physiology. Spatially resolved proteomics allows biologists to survey protein composition and dynamics with subcellular resolution. Here, we present PEELing, an integrated package and user-friendly web service for analyzing spatially resolved proteomics data. PEELing assesses data quality using curated or user-defined references, performs cutoff analysis to remove contaminants, connects to databases for functional annotation, and generates data visualizations-providing a streamlined and reproducible workflow to explore spatially resolved proteomics data. AVAILABILITY AND IMPLEMENTATION: PEELing and its tutorial are publicly available at https://peeling.janelia.org/ (Zenodo DOI: 10.5281/zenodo.15692517). A Python package of PEELing is available at https://github.com/JaneliaSciComp/peeling/ (Zenodo DOI: 10.5281/zenodo.15692434).

Proteomics↗
PubMed1988

Models for preattentive texture discrimination: Fourier analysis and local feature processing in a unified framework.

Spatial frequency analysis and local feature analysis may be considered to be examples of a class of models for texture discrimination. In this theoretical framework, texture discrimination relies on differences in the distribution of responses generated in linear receptive fields placed randomly on the texture. If the set of receptive fields is taken to be a collection of gratings, spatial-frequency analysis is recovered. If the set of receptive-fields is taken to be a collection of local feature templates, a corresponding local-feature model is recovered. In order to test such models, it is necessary to construct distinct texture pairs that elicit similar distributions of responses for all of the postulated receptive field profiles: the model prediction is that such textures are not discriminable. A method is provided for construction of such textures which test generic models within this framework. This framework includes not only strict Fourier analysis, but also models which postulate a collection of arbitrarily-shaped local feature detectors, and models which postulate both Fourier analysis and local feature detection.

Form Perception↗
PubMed2005

Chemical analysis of nanometric dielectric layers using spatially resolved VEELS.

Chemical analysis of structures in the nanometre range is a challenge even with modern analytical transmission electron microscopes (TEM). In this work we demonstrate that it is possible to measure chemical variations in the monolayer scale and identify compounds formed at the interfaces by using Valence Electron Energy Loss Spectroscopy (VEELS) in STEM line-scan mode. We discuss the impact of valence electrons delocalisation on the spatial resolution of our experiments. The method is tested first on a model sample containing a 4 nm HfO(2) layer. The limitations of VEELS to provide chemical analysis are then explored and discussed by applying this technique to a real semiconductor device containing a 2 nm HfO(2) layer.

Journal Article↗