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PubMed1986

Association between microtubules and mitochondria in myelinated axons of Lacerta muralis. A quantitative analysis.

The spatial relationship between microtubules and mitochondria was studied in myelinated axons of the ventral and dorsal spinal roots of the lizard Lacerta muralis by use of quantitative methods in single and serial sections. Microtubules mainly occurred in groups of 3 to 10. The mean density of microtubules was found to be significantly higher close to mitochondria than in the rest of the axoplasm. In single sections, 59-62% (according to the root region examined) of the microtubule groups were found to be 'associated' with mitochondria; this percentage rose to 74-76% in serial sections. The examination in serial sections of progressively longer segments of the same microtubule groups showed that the longer the segments of microtubule groups examined the higher was the percentage of microtubule groups 'associated' with mitochondria. The results obtained show that in the axons studied in the present research a non-accidental spatial association exists between microtubule groups and mitochondria. This evidence supports the suggestion that the microtubule groups play a role in the movement of mitochondria along the axon, even though it does not clarify the precise nature of this role.

Animals↗
PubMed1988

Mathematical simulation of proton tracks in water vapor and their microdosimetric analysis.

The spatial pattern of primary physical events was calculated for protons in water vapor by means of a Monte Carlo program. Two different cross section data sets were used to cover the proton energy range from 0.2 to 15 MeV. From the spatial pattern of primary energy deposition, proximity functions were derived and from these the dose mean lineal energy yD was calculated. The contributions of different track components to yD for spherical target volumes of 1-100 nm were analysed. The results are compared with the LET approximation and with analytical calculations of yD based on expectation values of the radial energy deposition around the proton path (radial dose profiles). Finally the associated volume of proton tracks was calculated using the so called 'linear approximation', and energy deposition distributions were derived. These were compared with distributions calculated by means of restricted-LET.

Algorithms↗
PubMed1985

Estimation of intracellular [Ca2+] by nonlinear indicators. A quantitative analysis.

When spatial gradients of intracellular free [Ca2+] are present, intracellular calcium indicators that have a nonlinear response to [Ca2+] may yield an estimate of [Ca2+] that differs from the spatial average [Ca2+]. We present two rules that provide (a) general criteria to distinguish those classes of indicators that will yield an overestimate of spatial average [Ca2+] from those that will yield an underestimate, and (b) limits on the extent to which spatial average [Ca2+] might be over- or underestimated. These rules are used to interpret quantitatively the aequorin luminescence signals obtained from cardiac ventricular myocardium.

Animals↗
PubMed2001

Autocorrelation analysis of bone structure.

We propose a method called spatial autocorrelation analysis (SACA) to determine the spatial anisotropy of the trabecular bone in order to investigate osteoporosis. For demonstrating the potential of SACA we first evaluate the method on rectangular, simulated test patterns as a simple model for the anisotropic pore structure of the bone. As a next step towards biomedical application, photographic reference images of human vertebral bone were investigated by SACA. Osteoporotic bone structure could be clearly differentiated from non-osteoporotic sample images. Moreover, for demonstration of the applicability and potential of the method for in vivo characterization of osteoporosis, the microstructure of the human calcaneus was investigated by MR-microimaging on a young healthy male subject and an osteoporotic female. The measurements were performed using a high-field (3T) whole-body MR tomograph equipped with a special, strong head gradient system. The signal was acquired with a surface coil mounted on an in-house-built device for convenient immobilization of the subject's foot. Using a 3D gradient echo sequence a resolution of 0.254 x 0.254 x 2.188 mm3 was achieved in vivo. Selected images were inverted, gradient corrected for the inhomogeneous but sensitive detection by the surface coil, and subsequently analyzed by SACA. The anisotropy of bone structure detected by SACA is a possible candidate for noninvasive determination of the osteoporotic status, potentially complementing standard bone mineral density measurements.

Adult↗
PubMed2005

Vesicular roundness and compound release in PC-12 cells.

The principal goals of this study were to establish a quantitative morphological analysis of spatial and regional properties of dense core vesicles, and to use this analysis to assess whether homotypic fusion is prominent in chronically treated PC-12 cells at elevated release levels. Simple computerized image processing of electron-micrographs provided the binary images of vesicular dense cores, whilst the artificial intelligence methods were needed to determine the vesicular membranes. As in the past, the presence of large, highly irregular vesicles, provided the morphological evidence of fused vesicles, but the irregularity of vesicular shape was assessed quantitatively-from its roundness. Free space of each vesicle was determined from the distance to its nearest-neighbor, or from the size of its Voronoi polygon. Within a Voronoi polygon, each point is closer to that vesicle than to any other vesicle. Large vesicles were not less round and did not have larger free space, as expected if they result from fusion of several smaller vesicles. In conclusion, we present a novel and rigorous morphological analysis of spatial and regional properties of dense core vesicles. The results demonstrate that the homotypic fusion is not prominent in PC-12 cells, before or following a chronic treatment that enhances release.

Algorithms↗
PubMed2004

[Spatial variability and quantitative analysis of field factors based on GIS].

The objective of this research was to investigate the variability and the quantitative relationships among soil nutrients and crop growth status and yield. All data were analyzed by both classical statistics and geostatistics based on GIS. Soil properties included soil pH, total N, organic matter, available P and available K, while crop growth status was indicated by SPAD, LAI and SPAD x LAI. All parameters except soil pH exhibited spatial correlation. Soil total N and organic matter, SPAD, LAI and SPAD x LAI were all correlated to rice yield. Kriged interpolation maps provided good indication of the spatial variability in crop yield and growth status. Spatial interpolation and correlation analysis proved that SPAD x LAI was more indicative of crop growth status than individual variables, and useful for implementing growth season and topdressing as needed.

Biomass↗
PubMed2025

Inferring cell trajectories of spatial transcriptomics via optimal transport analysis.

The integration of cell transcriptomics and spatial position to organize differentiation trajectories remains a challenge. Here, we introduce SpaTrack, which leverages optimal transport to reconcile both gene expression and spatial position from spatial transcriptomics into the transition costs, thereby reconstructing cell differentiation. SpaTrack can construct detailed spatial trajectories that reflect the differentiation topology and trace cell dynamics across multiple samples over temporal intervals. To capture the dynamic drivers of differentiation, SpaTrack models cell fate as a function of expression profiles influenced by transcription factors over time. By applying SpaTrack, we successfully disentangle spatiotemporal trajectories of axolotl telencephalon regeneration and mouse midbrain development. Diverse malignant lineages expanding within a primary tumor are uncovered. One lineage, characterized by upregulated epithelial mesenchymal transition, implants at the metastatic site and subsequently colonizes to form a secondary tumor. Overall, SpaTrack efficiently advances trajectory inference from spatial transcriptomics, providing valuable insights into differentiation processes.

Animals↗
PubMed2004

Analysis of cardiac signals using spatial filling index and time-frequency domain.

BACKGROUND: Analysis of heart rate variation (HRV) has become a popular noninvasive tool for assessing the activities of the autonomic nervous system (ANS). HRV analysis is based on the concept that fast fluctuations may specifically reflect changes of sympathetic and vagal activity. It shows that the structure generating the signal is not simply linear, but also involves nonlinear contributions. These signals are essentially non-stationary; may contain indicators of current disease, or even warnings about impending diseases. The indicators may be present at all times or may occur at random in the time scale. However, to study and pinpoint abnormalities in voluminous data collected over several hours is strenuous and time consuming. METHODS: This paper presents the spatial filling index and time-frequency analysis of heart rate variability signal for disease identification. Renyi's entropy is evaluated for the signal in the Wigner-Ville and Continuous Wavelet Transformation (CWT) domain. RESULTS: This Renyi's entropy gives lower 'p' value for scalogram than Wigner-Ville distribution and also, the contours of scalogram visually show the features of the diseases. And in the time-frequency analysis, the Renyi's entropy gives better result for scalogram than the Wigner-Ville distribution. CONCLUSION: Spatial filling index and Renyi's entropy has distinct regions for various diseases with an accuracy of more than 95%.

Electrocardiography↗
PubMed1989

Reliability and validity of the WATSMART three-dimensional optoelectric motion analysis system.

Reliability and validity of the WATSMART (Waterloo Spatial Motion Analysis Recording Technique) system was evaluated under static and dynamic conditions. In experiment 1, infrared light-emitting diodes (IREDs) were placed at the axis and along the arms of a clinical goniometer. Twelve angles in 5-degree increments were each recorded 10 times at each of three spatial locations. Reliability was assessed using intraclass correlation coefficients (ICCs) and analysis-of-variance procedures to determine within-trial variability. The ICCs for all spatial locations exceeded .99. The 95% confidence interval for each angle was less than 0.5 degree in all cases. Criterion-referenced instrument validity was assessed with regression analysis. Slopes of the regression of reconstructed angle on reference angle were close to unity for each spatial location. A systematic error, however, that increased as the goniometer was rotated 45 degrees away from the cameras was evident. In experiment 2, a robotic arm was fitted with four IREDs and made to repeat a defined movement trajectory 10 times at each of three spatial locations. The ICCs for portions of each trajectory ranged from .20 to .99. The results show that reliable and valid results can be obtained from this motion analysis system if adequate precautions are taken to reduce unwanted light reflections. Reliability and validity decreased somewhat as the object was rotated further away from the plane in which the cameras were mounted.

Humans↗
PubMed2006

A regional classification scheme for estimating reference water quality in streams using land-use-adjusted spatial regression-tree analysis.

Various approaches are used to subdivide large areas into regions containing streams that have similar reference or background water quality and that respond similarly to different factors. For many applications, such as establishing reference conditions, it is preferable to use physical characteristics that are not affected by human activities to delineate these regions. However, most approaches, such as ecoregion classifications, rely on land use to delineate regions or have difficulties compensating for the effects of land use. Land use not only directly affects water quality, but it is often correlated with the factors used to define the regions. In this article, we describe modifications to SPARTA (spatial regression-tree analysis), a relatively new approach applied to water-quality and environmental characteristic data to delineate zones with similar factors affecting water quality. In this modified approach, land-use-adjusted (residualized) water quality and environmental characteristics are computed for each site. Regression-tree analysis is applied to the residualized data to determine the most statistically important environmental characteristics describing the distribution of a specific water-quality constituent. Geographic information for small basins throughout the study area is then used to subdivide the area into relatively homogeneous environmental water-quality zones. For each zone, commonly used approaches are subsequently used to define its reference water quality and how its water quality responds to changes in land use. SPARTA is used to delineate zones of similar reference concentrations of total phosphorus and suspended sediment throughout the upper Midwestern part of the United States.

Environmental Monitoring↗
PubMed2005

Stimulus-dependent spatial patterns of response in SI cortex.

BACKGROUND: Recently we reported that vibrotactile flutter stimulation of a skin locus at different amplitudes evokes an optical response confined to the same local region of the primary somatosensory cortex (SI), where its overall magnitude varies proportionally to the flutter amplitude. In this report, we characterize the impact of the flutter amplitude on the spatial patterns of activity evoked within the responding SI region. RESULTS: In order to characterize the spatial pattern of activity within the responding SI region, images of the flutter-evoked SI optical response were segmented and analyzed with spatial frequency analysis. The analysis revealed that: (1) dominant spatial frequencies in the optical intrinsic signal emerge within the responding SI region within 3-5 sec of stimulus onset; (2) the stimulus-evoked activity is spatially organized in a form of several roughly parallel, anterior-posteriorly extended waves, spaced 0.4-0.5 mm apart; (3) the waves themselves exhibit spatial periodicities along their long axis; and (4) depending on the flutter stimulus amplitude, these periodicities can range from fine 0.15 mm "ripples" at 50 microm amplitude to well-developed 0.5 mm fluctuations at the amplitude of 400 microm. CONCLUSION: The observed spatiointensive fractionation on a sub-macrocolumnar scale of the SI response to skin stimulation might be the product of local competitive interactions within the stimulus-activated SI region and may be a feature that could yield novel insights into the functional interactions that take place in SI cortex.

Animals↗
PubMedDate not supplied

Spatial patterns of anthropometric variation in India with reference to geographic, climatic, ethnic and linguistic backgrounds.

BACKGROUND: Anthropometric variation can be fruitfully utilized to investigate microevolutionary processes. Anthropometric variations in the Indian subcontinent based on stature and three indices (Cephalic Index, Nasal Index, and Total Facial Index) are highly variable and discriminative among populations across geographical regions. AIMS: Anthropometric variation in stature, Cephalic Index (CI), Nasal Index (NI) and Total Facial Index (TFI) were investigated with respect to ethnic, linguistic, geographical and climatic affiliation, across the Indian subcontinent. SUBJECTS AND METHODS: Published data on anthropometric variations of 531 populations from the Indian subcontinent were analysed using discriminant analysis and spatial autocorrelation analysis. RESULTS: Discriminant analysis of the four anthropometric variables shows that stature and NI are good discriminators for populations of different languages. Stature, NI and CI discriminate well among populations of diverse ethnic origin and climatic conditions in different regions. TFI is not a good discriminator for populations of diverse ethnic, linguistic and climatic attributes. Spatial autocorrelation analysis showed significant departure from randomness, suggesting geographic structuring. The Moran's I estimate is positive and statistically significant for the four variables at low distances but exhibits significant negative association at higher values. CONCLUSION: The results suggest geographical clines for the four anthropometric variables and indicate the influence of population structure on the studied variables.

Analysis of Variance↗
PubMed2006

Spatially resolved ultra-trace analysis of elements combining resonance ionization with a MALDI-TOF spectrometer.

A combined setup for spatially resolved mass analysis of trace amounts of elements and macromolecules is presented. Using a MALDI-TOF mass spectrometer, a laser spectroscopic setup for resonant ionization of neutral atoms has been implemented. This allows for an efficient and selective detection of trace elements by means of resonance ionization mass spectrometry (RIMS). The instrumental scheme is described, and methodological developments are presented. In a first application pure, laser desorption/ionization with TOF-MS was used to measure mass distributions of cosmic nanodiamonds. For further applications regarding the spatially resolved ultra-trace analysis of elements in solid samples, an implanted target was used to characterize both laser desorption/ionization and laser desorption/resonance ionization for the detection of trace elements within. A perspective of the setup is given and future investigations are outlined.

Journal Article↗
PubMed1994

The spatial distribution and geographic analysis of endodontic office locations at the national scale.

The major purpose of this article was to quantify and describe the spatial distribution of endodontic office locations at the national scale. This study consisted of 2858 US American Association of Endodontists member endodontists as subjects. Three research questions were developed and explored. The location quotient technique, the spatial autocorrelation approach, and the multiple-regression procedure were the major analytical methods. Major results were as follows: the highest concentration (2.09 to 2.62) of endodontic offices per 100,000 US population was located in just two states, Massachusetts and Connecticut; the spatial distribution of endodontic office locations did exhibit significant (p < or = 0.05, two-tailed test) spatial autocorrelation. Therefore, the spatial distribution of endodontic office locations was nonrandom. Individually, the most significant predictor of endodontic office locations was the location of general practice dentists (its beta coefficient was 0.960606, significant at p < or = 0.0001).

Adult↗
PubMed2003

Application of Bayesian spatial statistical methods to analysis of haplotypes effects and gene mapping.

We propose a method to analyze haplotype effects using ideas derived from Bayesian spatial statistics. We assume that two haplotypes that are similar to one another in structure are likely to have similar risks, and define a distance metric to specify the appropriate level of closeness between the two haplotypes. Through the choice of distance metric, varying levels of population genetics theory can be incorporated into the modeling process, including some that allow estimation of the location of the disease causing mutation(s). This location can be estimated, along with the other parameters of the model, using Markov chain Monte Carlo (MCMC) estimation methods. We demonstrate the effectiveness of the model on two real datasets, a well-known dataset used to fine-map the gene for cystic fibrosis, and one used to localize the gene for Friedreich's ataxia.

Bayes Theorem↗
PubMed2005

Spatial navigation and causal analysis in a brain-based device modeling cortical-hippocampal interactions.

We describe Darwin X, a physical device that interacts with a real environment, whose behavior is guided by a simulated nervous system incorporating aspects of the detailed anatomy and physiology of the hippocampus and its surrounding regions. This brain-based device integrates cues from its environment and solves a spatial memory task. The responses of simulated neuronal units in the hippocampal areas during its exploratory behavior are comparable to place cells in the rodent hippocampus and emerged by associating sensory cues during exploration. To identify different functional hippocampal pathways and their influence on behavior, we employed a time series analysis that distinguishes causal interactions within and between simulated hippocampal and neocortical regions while the device is engaged in a spatial memory task. Our analysis identified different functional pathways within the neural simulation and prompts novel predictions about the influence of the perforant path, the trisynaptic loop and hippocampal-cortical interactions on place cell activity and behavior during navigation. Moreover, this causal time series analysis may be useful in analyzing networks in general.

Animals↗
PubMed2026

GenOT: generative optimal transport enables spatiotemporal interpolation and generation in cross-platform spatial transcriptomics.

Spatial transcriptomics technologies have revolutionized the analysis of spatial gene expression, yet integrating spatial information and generating data across heterogeneous samples remain challenging. We present GenOT, a generative framework combining multi-scale graph self-supervised contrastive learning with optimal transport barycenter theory for efficient cross-slice and cross-platform spatiotemporal interpolation. The core innovation of GenOT lies in introducing an optimal transport barycenter-based interpolation algorithm, which mathematically models spatial distribution differences across heterogeneous samples to reconstruct spatiotemporal gene expression dynamics. Extensive evaluations demonstrate that GenOT consistently outperforms existing approaches in spatial domain identification, cross-platform interpolation, and developmental trajectory reconstruction.

Spatial Transcriptomics↗
PubMed2004

[Natural transfer of nuclear genes in hybrid populations of green frogs Rana esculenta L., 1758 complex: space-time analysis of the phenomenon].

Spatial and temporal analysis of frequency distribution patterns of the Rana esculenta (=lessonae)-specific allele, Ldh-B71, in the populations and individuals of R. ridibunda from the Middle Dnieper region was performed. It was established that the allele was accumulated in the populations of Kiev, where on average 15 to 25% of individuals steadily preserved this allele through at least three to four generations. Furthermore, the allele frequency in juveniles and adults was similar. These findings suggest that the frogs carrying foreign genetic material were not eliminated from the populations, and hence, the observed introduction of foreign genes was adaptively neutral. The transfer of the genetic material from one species to another may be considered as a possible mechanism of the formation of an additional source for population genetic variation, which, however, do not seems to be evolutionary progressive.

Alleles↗