Search PubMed⌕ Search

SEARCH · Search PubMed

Results for “Spatial Analysis”

Search indexed PubMed citations on genomics, clinical trials, systematic reviews and public health. Explore titles, authors and supplied subject terms, then open the PubMed record.

Quote a phrase for an exact phrase match. Source license links do not imply unrestricted reuse.

At least 181 records · Page 10Linked to original sources
PubMedDate not supplied

Combined analysis of spatial and velocity displacement artifacts in phase contrast measurements of complex flows.

MR phase contrast (PC) velocity imaging is a promising tool for quantifying blood flow velocity in vivo. PC velocity imaging is, however, susceptible to artifacts that result from the displacement of spins during the finite duration pulse sequences. Such displacement artifacts can lead to errors in velocity measurements, especially in the presence of oblique and accelerating flows, which are common throughout the cardiovascular system. By tracking particles (representing spins) through a computed velocity field, and assuming that spatial and velocity encodings occur at discrete times during the pulse sequence, we simulate the separate and combined effects of oblique and acceleration artifacts on PC velocity images. We demonstrate, both by simulation and MR measurement, the errors associated with such artifacts in PC velocity measurements in a representative flow geometry. Using example particle trajectories, we provide a fluid dynamic basis for characteristic phase-velocity image distortions that can arise when imaging complex, physiologically relevant flows.

Animals↗
PubMed1998

Analysis of spatial distributions of cellular molecules during mechanical stressing of cell surface receptors using confocal microscopy.

Confocal laser scanning microscopy represents a suitable technique to study the localization of cellular components in three dimension. The authors used this technique to analyse cellular events related to mechanical stimulation of integrin receptors on the cell surface. By performing optical sections the distribution of integrin receptors on the apical surface of an osteoblastic cell was determined. Concerning intracellular compartimentalization of signal transduction events, it was demonstrated that mechanical stimulation of integrins induced their linkage to the cytoskeleton. Cytoskeletally associated proteins like vinculin and talin accumulated in the vicinity of the site where the mechanical stress was applied to integrins on the cell surface. Optical sections revealed that clustering of these proteins proceeded to the base of the cell with gradually decreasing extent. In summary, it was demonstrated that the local distribution of cellular components is an important factor in mechanically induced signal transduction.

Humans↗
PubMed1998

Model Analysis of Spatial Patterns in Mountain Pine Beetle Outbreaks.

The mountain pine beetle [MPB, Dendroctonus ponderosae Hopkins (Coleoptera: Scolytidae)] is an aggressive bark beetle, one that typically needs to kill host trees in order to successfully reproduce. This ecological adaptation has resulted in an organism that is both economically important and ecologically significant. Even though significant resources have been expended on MPB research, and a great deal of knowledge exists regarding individual aspects of MPB ecology, some of the most basic questions regarding outbreaks remain unanswered. In our opinion, one reason for the lack of synthesis and predictive power is the inadequate treatment of spatial dynamics in outbreak theories. This paper explicitly addresses the role of spatial dynamics in the precipitation and propagation of MPB outbreaks. We first describe a spatially dynamic model of the MPB/forest interaction that includes chemical ecology, spatial redistribution of beetles, attack, and resulting host mortality. The model is a system of 6 coupled, partial differential equations with 7 state variables and 20 parameters. It represents an attempt to capture the relatively complex predator/prey interaction between MPB and host trees by including the minimum phenomenological descriptions necessary for ecological credibility. This system of equations describes the temporal dynamics of: beetle attraction as a function of pheromone concentration; the change in numbers of flying and nesting beetles; tree resistance/susceptibility; and tree recovery from attack. Spatial dynamics are modeled by fluxes due to gradients in pheromones and kairomones, and the random redistribution of beetles in absence of semiochemicals. We then use the parameterized model to explore three issues central to the ecology of MPB/forest interaction. The first of these is in response to the need for objective ways to compare patterns of successful beetle attacks as they evolve in space. Simulation results indicate that at endemic levels, the pattern of successful attacks are determined almost exclusively by the underlying distribution of susceptible host trees (environmental determinism). As an outbreak develops, the pattern of successfully attacked trees switches to one that is dynamically driven by the self-generated semiochemical landscape (dynamic determinism). This switch from an environmentally determined spatial pattern to a dynamically driven pattern is the hallmark of an outbreak. We discuss the application of a spatial correlation coefficient that can be used to differentiate between the spatial distribution of killed trees in endemic and outbreak phases. The second issue we address through simulation is synchrony in adult emergence. Synchronous adult emergence is critical for the mass attack strategy necessary for overcoming tree defenses. Results from these simulations indicate that the degree of synchrony in adult emergence can have important consequences for assessing the risk of an outbreak. The final issue we investigate through simulation is the effect of spatial pattern of nurse trees (those successfully attacked the previous year) on outbreak potential. Simulations indicated that the spatial proximity of nurse trees was an important determinant of subsequent successful attacks. We conclude with a discussion of the general implications of our simulation experiments. Copyright 1998 Academic Press.

Journal Article↗
PubMed1992

Application of three-dimensional molecular hydrophobicity potential to the analysis of spatial organization of membrane protein domains. II. Optimization of hydrophobic contacts in transmembrane hairpin structures of Na+, K(+)-ATPase.

A method of packing of transmembrane hairpin helices in proteins is described. The procedure is based on the optimization of hydrophobic contacts calculated using the three-dimensional (3D) molecular hydrophobicity potential technique. To verify the validity of the computational scheme, we calculated relative orientations of membrane-spanning peptides in pairs L2-L3, M2-M3, and M4-M5 from L- and M-subunits of the photoreaction center of Rhodopseudomonas viridis and compared the predicted structures with those derived from atomic coordinates. The results of computer modeling agree with the X-ray data. We applied the approach proposed to study possible interhelical interactions in transmembrane hairpin structures of Na+, K(+)-ATPase.

Cell Membrane↗
PubMed1993

Application of three-dimensional molecular hydrophobicity potential to the analysis of spatial organization of membrane domains in proteins. III. Modeling of intramembrane moiety of Na+, K(+)-ATPase.

The most probable interlocation of transmembrane alpha-helices of Na+, K(+)-ATPase has been calculated by a computer-aided molecular simulation approach in the framework of models with eight and 10 helical peptides for the alpha-subunit. The method is based on the concept of three-dimensional molecular hydrophobicity potential (MHP) and provides valuable description of spatial hydrophobic properties of membrane-spanning segments as well as helix-helix packing interactions inside the membrane. Resulting model of the arrangement of intramembrane domain agrees with recent results on hydrophobic photolabeling of an intramembrane part of the beta-subunit and the sixth transmembrane segment of the alpha-subunit. It is also consistent with current ideas on hydrophobic organization of integral membrane proteins. Possible topology of a cation-binding site is discussed.

Cell Membrane↗
PubMed1994

XY chromosome behaviour in the germ-line of the human male: a FISH analysis of spatial orientation, chromatin condensation and pairing.

We have used multicolour fluorescence in situ hybridization to study the behaviour of the X and Y chromosomes in relation to a representative autosome, chromosome 1, on air-dried testicular preparations from normal fertile human males. In a proportion of Sertoli cells at interphase as well as spermatogonial metaphases there is an apparent selective undercondensation of the heterochromatic block of the long arm of the Y, which may be of functional significance with respect to Y-specific gene activity, initiating and maintaining spermatogenesis; we suggest that this may involve a mechanism similar to heterochromatin position-effect variegation in Drosophila. In the supporting Sertoli as well as pre-meiotic and leptotene cells the X and Y occupy relatively restricted domains at opposite poles of the nuclear membrane, while the chromosome 1 centromere regions are located interstitially and appear prealigned. The XY pairing and 'sex vesicle' formation comprises a complex series of spatial movement and differential condensation patterns. On the basis of these observations we propose that: the XIST/Xist gene, known to be involved in somatic X inactivation, imposes a chromatin reorganization leading to bending at the X-inactivation centre both at first meiotic prophase in males and in the soma in females; and the differential X and Y segments are protected from potentially deleterious meiotic exchanges by their separate spatial orientation. In addition, there is an indication that the timing of pairing and first meiotic segregation of the sex chromosomes is different, and precocious in comparison to the pairing and segregation of the autosomes, which may explain the high incidence of sex chromosome aneuploidy in sperm.

Animals↗
PubMed1984

Functional analysis of spatially discriminative neurons in prefrontal cortex of rhesus monkey.

The present study addresses the question of whether prefrontal neurons that exhibit spatially selective patterns of discharge during the delay period in spatial delayed-response tasks code a mnemonic event. To examine this question, rhesus monkeys were trained to perform two variants of the classical spatial delayed-response task in both of which a delay intervened between cue presentation and response and the discriminative stimulus had to be recalled at the moment of response. They were also trained to perform two control tasks in which memory was not required since cues present throughout the delay informed the monkey of the correct response. Extracellular recordings were obtained from 192 neurons located in and around the principal sulcus of the frontal lobe during performance of both control and delay tasks. Comparison of the same neuron's activity across the 4 task conditions revealed a class of neuron that displayed spatially discriminative activity in the delay period only during delayed-response tasks and not during the same period of the control tasks. These neurons are candidates for units engaged in a central mnemonic process. Other neurons either exhibited similar activity in the delay period of control and delayed-response tasks or stronger discriminative behavior during this period in control tasks than in delayed response tasks. We conclude that delay-related spatially discriminative neurons found in the prefrontal association cortex are diversified and that certain of them play a specific role in mnemonic coding.

Animals↗
PubMed1994

An analysis of spatial navigation in prenatally protein malnourished rats.

Developing rats were either malnourished or adequately nourished during the prenatal period by feeding their dams diets of low (6% casein) or adequate (25% casein) protein content 5 weeks prior to mating and throughout pregnancy. All pups received adequate nutrition from the day of birth onwards. Male offspring were tested in one of two spatial navigation tests in the Morris water tank. In proximal-cue tests (postnatal days 16-20), the position of a platform, which provided a means to escape from swimming, was denoted by an obvious visual cue located directly on the platform. In distal-cue tests (postnatal days 20-27 and adult ages, days 70-71 and days 220-221), the escape platform was submerged below the surface of the water so that the rats were required to use extramaze visual cues to guide them to the platform. Neither proximal-cue nor distal-cue navigation was significantly impaired in the prenatally malnourished rats relative to controls, at any of the ages tested.

Animals↗
PubMed1989

A choice reaction time analysis of spatial frequency discrimination.

Simple reaction time to the onset of sinewave gratings was measured as a function of spatial frequency in two observers. These results are compared to the choice reaction time required for the observer to correctly discriminate the spatial frequency of two gratings flashed sequentially. Grating contrast was either 0.75 or 1.5 logarithmic units above the detection threshold for each spatial frequency tested. The spatial phase and contrast of the reference and test gratings were varied from trial to trial by small random amounts to eliminate fixed cues other than the difference frequency. The spatial frequency difference between the reference and test grating was either 0.125, 0.25 or 0.5 octave. As has been earlier reported, simple reaction time increases with increasing spatial frequency. Contrary to this, choice reaction time first increases (up to 4 c/deg) and then decreases. We derived the time required by the observer to make a spatial frequency judgment by subtracting the simple reaction time from the choice reaction time for a given spatial frequency and contrast. The maximum decision time occurs in the medium spatial frequency range (between 1 and 4 c/deg), at which frequencies we are most sensitive. The time required to make a correct spatial-frequency discrimination decreases with increasing spatial-frequency difference. The decision time is, however, fairly invariant over a large range of suprathreshold contrast levels. The findings suggest that the decision time for spatial frequency discrimination increases with the number of mechanisms involved.

Contrast Sensitivity↗
PubMed1990

Nonlinear analysis of spatial vision using first-and-second-order Volterra transfer functions measurement.

The harmonic input method of nonlinear system identification is modified to allow the Volterra series approach to be used for psychophysical investigation of various aspects of human pattern vision in the spatial frequency domain. While it is well known that only one modulation transfer function provides a complete characterization of a linear system, a number of multidimensional transfer functions are needed to identify a nonlinear system. We have shown, that so far as the contrast sensitivity to sine-wave gratings may be used for an empirical estimate of the first-order modulation transfer function of the human visual system, the contrast sensitivity to difference harmonics may be used as an empirical estimate of the second-order modulation transfer function. A difference harmonic arises from a mixture of two sine-wave gratings resulting from the nonlinearity of the visual system. Difference harmonic, experienced as some periodic beatlike structure, may still be observed if frequencies of the component gratings are higher than the maximum visual acuity. The visibility of the low-frequency beatlike pattern produced by pairs of sine-wave gratings, which themselves are of spatial frequencies too high to be resolved, could be accounted for either by a difference frequency distortion product (Burton, 1973) or by a special beat detector (Derrington & Badcock, 1985). We found that increasing the contrast of one component grating may be compensated for by reducing the contrast of the other component grating, the beatlike pattern being at threshold. This is exactly what would be expected if the beatlike pattern is detected because of the difference harmonics produced by nonlinearity of the visual system. We have determined contrast thresholds for the difference harmonics which occur between two unresolved different spatial frequencies. The contrast sensitivity function for difference harmonics was found to have a marked similarity both in the shape and position of peak sensitivity to the contrast sensitivity function for single sine-wave gratings. Another important characteristic of the contrast sensitivity function for difference harmonics is that it depends only on the frequency difference, delta f = f1 - f2, rather than on the value of either f1 or f2. All this indicates that a difference harmonic arises from local nonlinearities in the visual system. More specifically, the visual system may be represented as a cascade system, composed of a linear system with transfer function O (f) followed by a nonlinear element, r(.), without spatial spread in cascade with another linear system with transfer function P (f).(ABSTRACT TRUNCATED AT 400 WORDS)

Contrast Sensitivity↗
PubMed1983

A behavioural analysis of spatial localization following electrolytic, kainate- or colchicine-induced damage to the hippocampal formation in the rat.

This experiment examines the notion that in the rat the hippocampal formation is an essential structure in the neurological representation of spatial abilities. Spatial localization by rats with different types of hippocampal damage, including bilateral electrolytic lesions, unilateral and bilateral kainic acid-induced CA3-CA4 lesions, and unilateral and bilateral colchicine-induced dentate gyrus lesions, was compared with vehicle-injected and normal control groups in the Morris water task. The task required the rats to escape from cold water by finding a submerged and hidden platform located at a fixed place within the room. The start point was varied randomly from trial to trial and there were no local cues available to indicate the position of the hidden platform. After training, the platform was moved. Escape latencies and the initial swimming headings revealed that all lesion groups, except the unilateral CA3-damaged group, were impaired at finding the platform: the dentate-damaged rats exhibited the greatest deficit. When the platform was moved the control rats swam mainly in the part of the pool that had previously contained the platform and, on finding it in the new location, they showed a marked dishabituation of rearing. None of the bilateral lesion groups showed these effects.

Animals↗
PubMed1994

Confocal image analysis of spatial variations in immunocytochemically identified calmodulin during pollen hydration, germination and pollen tube tip growth in Nicotiana tabacum L.

Using monoclonal anti-calmodulin antibodies in conjunction with confocal scanning laser microscopy we have analysed the spatial variations in the distribution pattern of calmodulin (CaM) during the sequential events of pollen hydration, germination and tube growth in Nicotiana tabacum. These immunocytochemical observations have been complemented by immunochemical studies wherein the anti-calmodulin antibody raised against pea CaM recognises a polypeptide of c. 18 kDa in the pollen extracts. Digitisation of confocally acquired optical sections of immunofluorescence images reveals that in hydrated pollen a high level of CaM is consistently present in the region of the germinal apertures. Subsequently, with the onset of germination a high CaM concentration was found associated with the plasma membrane of the germination bubble and in the cytoplasm in its vicinity, while in the vegetative cytoplasm a weak diffuse and intense punctate signal was registered. CaM immunostain was also detected in association with the plasma membrane of the tube tips in both short and long pollen tubes. Furthermore, the cytosol of the tubes invariably manifested an apically focused CaM gradient. We were, however, unable to detect any vacuolar association of CaM in the older regions of the pollen tubes. Although punctate immunostain was obvious across the pollen tube numerous punctate structures were invariably present in the extreme tip. The possible implications of these findings in development of cell polarity, polarised growth, maintenance of calcium homeostasis and CaM interactions with other mechanochemical motor proteins in effecting propulsion of organelles during pollen hydration, germination and pollen tube growth are discussed.

Blotting, Western↗
PubMed1985

Odor-related bulbar EEG spatial pattern analysis during appetitive conditioning in rabbits.

Mildly thirsty rabbits were classically conditioned by reinforcement with water to give a discriminative licking response to the presentation of odors. The jaw movement component of the licking conditioned response (JM CR) was elicited only by the reinforced odor; an increase in the relative frequency of sniffing (RR CR) occurred to both reinforced (CS+) and nonreinforced (CS-) odors. Oscillatory electroencephalographic bursts of high-frequency (40-80 Hz) potentials were recorded epidurally from the lateral olfactory bulb with 64-electrode arrays (8 X 8, 3.5 X 3.5 mm) chronically implanted. Emphasis was on comparing bursts during odor presentation with bursts preceding odor arrival on each trial. A "detection" burst was characterized as occurring immediately after odor arrival and before the sniff response. "Discrimination" bursts occurred during the RR CR and before the JM CR onset. Significant air-odor burst differences (together with sniffing) occurred through up to six sessions for both CS+ and CS- odors for "discrimination" bursts but not for "detection" bursts.

Animals↗