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At least 1,531 records · Page 85Linked to original sources

Mixture models and the probabilistic structure of depth cues.

Monocular cues to depth derive their informativeness from a combination of perspective projection and prior constraints on the way scenes in the world are structured. For many cues, the appropriate priors are best described as mixture models, each of which characterizes a different category of objects, surfaces, or scenes. This paper provides a Bayesian analysis of the resulting model selection problem, showing how the mixed structure of priors creates the potential for non-linear, cooperative interactions between cues and how the information provided by a single cue can effectively determine the appropriate constraint to apply to a given image. The analysis also leads to a number of psychophysically testable predictions. We test these predictions by applying the framework to the problem of perceiving planar surface orientation from texture. A number of psychophysical experiments are described that show that the visual system is biased to interpret textures as isotropic, but that when sufficient image data is available, the system effectively turns off the isotropy constraint and interprets texture information using only a homogeneity assumption. Human performance is qualitatively similar to an optimal estimator that assumes a mixed prior on surface textures--some proportion being isotropic and homogeneous and some proportion being anisotropic and homogeneous.

Adult↗

Chaotic mixing of granular materials in two-dimensional tumbling mixers.

We consider the mixing of similar, cohesionless granular materials in quasi-two-dimensional rotating containers by means of theory and experiment. A mathematical model is presented for the flow in containers of arbitrary shape but which are symmetric with respect to rotation by 180 degrees and half-filled with solids. The flow comprises a thin cascading layer at the flat free surface, and a fixed bed which rotates as a solid body. The layer thickness and length change slowly with mixer rotation, but the layer geometry remains similar at all orientations. Flow visualization experiments using glass beads in an elliptical mixer show good agreement with model predictions. Studies of mixing are presented for circular, elliptical, and square containers. The flow in circular containers is steady, and computations involving advection alone (no particle diffusion generated by interparticle collisions) show poor mixing. In contrast, the flow in elliptical and square mixers is time periodic and results in chaotic advection and rapid mixing. Computational evidence for chaos in noncircular mixers is presented in terms of Poincare sections and blob deformation. Poincare sections show regions of regular and chaotic motion, and blobs deform into homoclinic tendrils with an exponential growth of the perimeter length with time. In contrast, in circular mixers, the motion is regular everywhere and the perimeter length increases linearly with time. Including particle diffusion obliterates the typical chaotic structures formed on mixing; predictions of the mixing model including diffusion are in good qualitative and quantitative (in terms of the intensity of segregation variation with time) agreement with experimental results for mixing of an initially circular blob in elliptical and square mixers. Scaling analysis and computations show that mixing in noncircular mixers is faster than that in circular mixers, and the difference in mixing times increases with mixer size. (c) 1999 American Institute of Physics.

Journal Article↗

Effects of a new Helicobacter pylori infection on height and weight in Colombian children.

PURPOSE: The aim of the study is to investigate whether a new infection caused by Helicobacter pylori in preschool children transiently or permanently affects height and weight. METHODS: A cohort of 347 children from three day care centers was followed up for a median of 494 days. Breath tests and anthropometric measurements were performed every 2 to 4 months. The lag effect of a new infection on linear growth during a period of 8 months was analyzed by using mixed-effects models. RESULTS: One hundred five children (30.3%) became infected during the follow-up period and accumulated 92 person-years of follow-up. A significant decrease in growth velocity was observed during the first 4 months after infection. There was no height catch-up in infected children, and after 8 months, an infected child had a cumulative difference of 0.24 cm (growth velocity; 95% confidence interval, 0.22-0.26) compared with an uninfected child. Newly infected children experienced a small decrease in weight at the first visit compared with uninfected children, which became nonsignificant after the second visit without catch-up. CONCLUSIONS: This study shows a significant and nontransient effect of infection caused by H. pylori on height and weight. Potential interventions that target infected preschool children are likely to prevent growth retardation.

Body Height↗

The influence of heredity on self-reported sleep patterns in free-living humans.

The heritability of self-reported sleep patterns was investigated with 86 identical and 78 fraternal same-sex and 51 fraternal mixed-gender adult twin pairs who were paid to maintain 7-day diaries. Linear structural modeling was applied to investigate the nature and degree of genetic and environmental influences and revealed significant genetic influences on the time that individuals went to sleep and woke up, how often the individual woke up during the night, the duration of sleep and wakefulness, and how alert the individual felt upon waking and over the day, accounting for 21% to 41% of the variance. These influences of heredity were present for sleep-wake behavior over the entire week and also when the sleep-wake pattern was analyzed separately for weekdays and weekends. Further, it was demonstrated that there were multiple independent influences of heredity on sleep-wake behavior. The results suggest that sleep-wake patterns are not learned but result in part from multiple heritable influences.

Adult↗

On the solution of mixed-integer nonlinear programming models for computer aided molecular design.

This paper addresses the efficient solution of computer aided molecular design (CAMD) problems, which have been posed as mixed-integer nonlinear programming models. The models of interest are those in which the number of linear constraints far exceeds the number of nonlinear constraints, and with most variables participating in the nonconvex terms. As a result global optimization methods are needed. A branch-and-bound algorithm (BB) is proposed that is specifically tailored to solving such problems. In a conventional BB algorithm, branching is performed on all the search variables that appear in the nonlinear terms. This translates to a large number of node traversals. To overcome this problem, we have proposed a new strategy for branching on a set of linear branchingfunctions, which depend linearly on the search variables. This leads to a significant reduction in the dimensionality of the search space. The construction of linear underestimators for a class of functions is also presented. The CAMD problem that is considered is the design of optimal solvents to be used as cleaning agents in lithographic printing.

Journal Article↗

Optimization of beam orientations and beam weights for conformal radiotherapy using mixed integer programming.

An algorithm for optimizing beam orientations and beam weights for conformal radiotherapy has been developed. The algorithm models the optimization of beam orientations and beam weights as a problem of mixed integer linear programming (MILP), and optimizes the beam orientations and beam weights simultaneously. The application process of the algorithm has four steps: (a) prepare a pool of beam orientation candidates with the consideration of avoiding any patient-gantry collision and avoiding direct irradiation of organs at risk with quite low tolerances (e.g., eyes). (b) Represent each beam orientation candidate with a binary variable, and each beam weight with a continuous variable. (c) Set up an optimization problem according to dose prescriptions and the maximum allowed number of beam orientations. (d) Solve the optimization problem with a ready-to-use MILP solver. After optimization, the candidates with unity binary variables remain in the final beam configuration. The performance of the algorithm was tested with clinical cases. Compared with standard treatment plans, the beam-orientation-optimized plans had better dose distributions in terms of target coverage and avoidance of critical structures. The optimization processes took less than 1 h on a PC with a Pentium IV 2.4 GHz processor.

Algorithms↗

Community education for cardiovascular disease prevention. Morbidity and mortality results from the Minnesota Heart Health Program.

The Minnesota Heart Health Program was a community trial of cardiovascular disease prevention methods that was conducted from 1980 to 1990 in three Upper Midwestern communities with three matched comparison communities. A 5- to 6-year intervention program used community-wide and individual health education in an attempt to decrease population risk. A major hypothesis was that the incidence of validated fatal and nonfatal coronary heart disease and stroke in 30- to 74-year-old men and women would decline differentially in the education communities after the health promotion program was introduced. This hypothesis was investigated using mixed-model regression. The intervention effect was modeled as a series of annual departures from a linear secular trend after a 2-year lag from the start of the intervention program. In the education communities, 2,394 cases of coronary heart disease and 818 cases of stroke occurred, with 2,526 and 739 cases, respectively, being seen in the comparison communities. The overall decline in coronary heart disease incidence was 1.8 percent per year in men (p = 0.03) and 3.6 percent per year in women (p = 0.007). For stroke, there were no significant secular trends. The authors recently published findings showing minimal effects of sustained intervention on risk factor levels. In the current report, there was no evidence of a significant intervention effect on morbidity or mortality, either for coronary heart disease or for stroke.

Adult↗

Amplicon-based analyses of single-nucleotide polymorphisms reveal the genetic structure of a forest insect baculovirus.

Amplicon-based next-generation sequencing (aNGS) is a powerful tool in diagnostics and genetic studies. We developed an aNGS approach to study the population structure of the Lymantria dispar multiple nucleopolyhedrovirus (LdMNPV), a specific pathogen of the spongy moth Lymantria dispar, a devastating lepidopteran pest in European, Asian, and American deciduous forests. Naturally occurring pathogens, such as LdMNPV, are frequently reported to cause epizootics and a rapid decline of insect pest populations. DNA samples of pooled LdMNPV-infected larvae from forest regions in Northern Bavaria (Germany) were subjected to whole genome sequencing (WGS) and aNGS optimization. Then, five marker regions were identified in the genome of LdMNPV for PCR amplification, covering 21 highly specific single-nucleotide polymorphism (SNP) positions that enabled comprehensive analysis at the intra- and intersample levels. These markers were used in aNGS analyses of 70 single larvae collected in 12 forest sites, followed by SNP-based hierarchical clustering on principal components (HCPC). This approach identified three LdMNPV population clusters consisting of homogenous (pure) and heterogeneous (mixed) LdMNPV samples. To explain the genetic variability within each sample, a model based on linear optimization was developed and validated by comparing the predictions from aNGS and WGS data. The analyses showed that LdMNPV from Bavarian forests carried genetic variants highly similar to those present in the commercial product Gypchek®, developed for biocontrol. The distribution of genetic characteristics showed some trends of geographic and temporal prevalence, which are indicative of short-distance and long-distance transmission. The aNGS approach offers a fast, cost-effective, and comprehensive insight into the natural population structure of LdMNPV.

insects↗

Universal and nonuniversal features in the crossover from linear to nonlinear interface growth.

We study a restricted solid-on-solid model involving deposition and evaporation with probabilities p and 1 - p, respectively, in one-dimensional substrates. It presents a crossover from Edwards-Wilkinson (EW) to Kardar-Parisi-Zhang (KPZ) scaling for p approximately 0.5. The associated KPZ equation is analytically derived, exhibiting a coefficient lambda of the nonlinear term proportional to q identical with p - 1/2, which is confirmed numerically by calculation of tilt-dependent growth velocities for several values of p. This linear lambda - q relation contrasts to the apparently universal parabolic law obtained in competitive models mixing EW and KPZ components. The regions where the interface roughness shows pure EW and KPZ scaling are identified for 0.55< or =p< or =0.8, which provides numerical estimates of the crossover times tc. They scale as tc approximately lambda -phi with phi=4.1+/-0.1, which is in excellent agreement with the theoretically predicted universal value phi=4 and improves previous numerical estimates, which suggested phi approximately 3.

Journal Article↗

Affective behavioural disturbances in Alzheimer's disease and ischaemic vascular disease.

OBJECTIVES: To investigate affective change in Alzheimer's disease and ischaemic vascular disease and examine the contribution of white matter disease to psychopathology in these dementias. Based on earlier studies, it was predicted that: (1) depression would be more prevalent and severe in ischaemic vascular disease; (2) psychomotor slowing would be more prevalent in ischaemic vascular disease; (3) apathy would be more prevalent in ischaemic vascular disease; and (4) The degree of white matter disease would be positively correlated with the severity of psychomotor slowing. METHODS: Ratings of affective/behavioural states and white matter disease were compared in 256 patients with Alzheimer's disease and 36 patients with ischaemic vascular disease or mixed dementia with an ischaemic vascular component using analysis of variance (ANOVA) and linear regression models. RESULTS: The findings were: (1) decreased affect/withdrawal was more prevalent and severe in patients with ischaemic vascular disease and patients with white matter disease; (2) psychomotor slowing was more severe in patients with ischaemic vascular disease and patients with white matter disease; and (3) differences between Alzheimer's disease and ischaemic vascular dementia groups in the degree of psychomotor slowing were independent of the severity of white matter disease. CONCLUSIONS: Future studies using structural and functional neuroimaging techniques would be helpful for examining the relation between neurobiological factors and affective/behavioural disturbances in dementia.

Adult↗

Simple ovarian cysts in postmenopausal patients with breast carcinoma treated with tamoxifen: long-term follow-up.

PURPOSE: To assess the long-term natural history of simple ovarian cysts diagnosed in postmenopausal patients with breast carcinoma treated with tamoxifen citrate. MATERIALS AND METHODS: Of 332 postmenopausal women with breast cancer who were treated with tamoxifen, 32 (9.6%) had simple ovarian cysts. Long-term follow-up transvaginal ultrasonography (US) was performed in patients who had these simple ovarian cysts, and serum CA 125 samples were taken. Standard linear regression analysis with repeated measurements with irregular time points with the mixed-effects model was used to correlate cyst size at transvaginal US with the time elapsed since the diagnosis of ovarian cysts. Statistical analysis was performed by using the t test for regression slope. RESULTS: There was a significant decrease in cyst size over time (P =.017). Three (9%) of the 32 patients underwent surgery. Histologic evaluation of the removed ovaries revealed simple ovarian cyst, well-differentiated ovarian carcinoma, and metastatic adenocarcinoma. The remaining 29 (91%) continued with regular follow-up examinations only. In 11 (34%) of the 32 patients there were no changes in cyst size over time. In nine patients (28%) additional cysts appeared. Cysts disappeared, increased in size, disappeared and reappeared, or decreased in size in four (12%) patients each. Serum CA 125 levels were within the normal range. CONCLUSION: In postmenopausal patients with breast carcinoma who were treated with tamoxifen, long-term follow-up US of simple ovarian cysts demonstrates a significant decrease in cyst size over time.

Antineoplastic Agents, Hormonal↗

Association of genetic polymorphisms with serum estrogens measured multiple times during a 2-year period in premenopausal women.

There is evidence that circulating estrogens are associated with breast cancer risk. In this study of premenopausal women, we explored the association of polymorphisms in genes in the estrogen synthesis and metabolism pathways with serum and urinary levels of estrone (E1) and estradiol (E2) and with the urinary ratio of 2-hydroxyestrone (2-OHE1)/16alpha-hydroxyestrone (16alpha-OHE1). This analysis included 220 women, who were participants in a 2-year randomized soy intervention. Blood specimens were collected in the luteal phase of the menstrual cycle an average of 4.4 times over 2 years. Overnight urinary specimens were collected on the same cycle day, only at baseline. Levels of E1, E2, 2-OHE1, and 16alpha-OHE1 were measured by enzyme immunoassays. The DNA samples were analyzed by PCR/RFLP for the COMT Val158Met, CYP1A1*2A, CYP1A1*2B, CYP1A2*1F, CYP1B1 Val432Leu, and CYP17 T27C polymorphisms. We applied mixed models to investigate the relations between genotypes and repeated serum hormone measurements and generalized linear models to assess associations between genotypes and urinary estrogen metabolites. The CYP1A2 C allele was significantly associated with lower serum E2 levels; in CC genotype carriers, serum E2 levels were 26.3% lower than in homo- and heterozygous common allele carriers combined (P = 0.01). CYP1A2*1F also affected the urinary 2-OHE1/16alpha-OHE1 ratio; carriers of the variant C allele had a markedly lower ratio than individuals with the AA genotype (1.37 versus 1.76; P = 0.002). These data suggest that CYP1A2*1F is associated with lower circulating levels of E2, and that it may be a susceptibility locus for breast cancer.

Adult↗

Cytochrome P450 2C9 (CYP2C9) and vitamin K epoxide reductase (VKORC1) genotypes as determinants of acenocoumarol sensitivity.

The aim of the study is to explore the contribution of genetic factors related either to drug metabolism (cytochrome P450 2C9) or to drug target (vitamin K epoxide reductase) to variability in the response to acenocoumarol among 222 healthy volunteers after a single oral dose. Associations between a pharmacodynamic index (reduction in factor VII activity and international normalized ratio [INR] change) and several genetic polymorphisms (VKORC1: -4931T>C, -4451C>A, -2659G>C, -1877A>G, -1639G>A, 497C>G, 1173C>T, and CYP2C9*3) were investigated using haplotype and univariate analyses. VKORC1 haplotypes were associated with the pharmacologic response, and this association can be explained only by the effect of the -1639G>A polymorphism (or alternatively by 1173C>T, which is in complete association with it). Indeed, it explains about one third of the variability of the pharmacologic response (37% of factor VII decrease and 30% of INR change). Moreover, the previously observed effect of the CYP2C9*3 allele is independent of the VKORC1 gene effect. These 2 polymorphisms account for up to 50% of the interindividual variability. The simple genotyping of 2 single-nucleotide polymorphisms (SNPs), VKORC1 -1639G>A or 1173C>T and the CYP2C9*3 polymorphisms, could thus predict a high risk of overdose before initiation of anticoagulation with acenocoumarol, and provide a safer and more individualized anticoagulant therapy.

Acenocoumarol↗

Efficient computation of the inverse of gametic relationship matrix for a marked QTL.

Best linear unbiased prediction of genetic merits for a marked quantitative trait locus (QTL) using mixed model methodology includes the inverse of conditional gametic relationship matrix (G-1) for a marked QTL. When accounting for inbreeding, the conditional gametic relationships between two parents of individuals for a marked QTL are necessary to build G-1 directly. Up to now, the tabular method and its adaptations have been used to compute these relationships. In the present paper, an indirect method was implemented at the gametic level to compute these few relationships. Simulation results showed that the indirect method can perform faster with significantly less storage requirements than adaptation of the tabular method. The efficiency of the indirect method was mainly due to the use of the sparseness of G-1. The indirect method can also be applied to construct an approximate G-1 for populations with incomplete marker data, providing approximate probabilities of descent for QTL alleles for individuals with incomplete marker data.

Algorithms↗

The discrimination in time series analysis - a working procedure.

A linear filter model can be differentiated into an autoregressive, a moving average and into a mixed autoregressive-moving average model of order k. In this paper is given a working procedure for the discrimination of short time series in its order.

Statistics as Topic↗

The formulation of the control of an expression pattern in a gene network by propositional calculus.

In this study we model a gene network as a continuous-time switching network. In this model, each gene has a binary state which indicates if the gene expresses or not. We propose a method to control a sequence of expression patterns in the gene network model by adding another continuous-time switching network. By using propositional calculus, we will show that the control problem can be formulated as a mixed-integer linear programming problem with linear constraints.

Animals↗

Enriching the sequence substitution matrix by structural information.

A fundamental step in homology modeling is the comparison of two protein sequences: a probe sequence with an unknown structure and function and a template sequence for which the structure and function are known. The detection of protein similarities relies on a substitution matrix that scores the proximity of the aligned amino acids. Sequence-to-sequence alignments use symmetric substitution matrices, whereas the threading protocols use asymmetric matrices, testing the fitness of the probe sequence into the structure of the template protein. We propose a linear combination of threading and sequence-alignment scoring function, to produce a single (mixed) scoring table. By fitting a single parameter (which is the relative contribution of the BLOSUM 50 matrix and the threading energy table of THOM2) we obtain a significant increase in prediction capacity in the twilight zone of homology modeling (detecting sequences with <25% sequence identity and with very similar structures). For a difficult test of 176 homologous pairs, with no signal of sequence similarity, the mixed model makes it possible to detect between 40 and 100% more protein pairs than the number of pairs that are detected by pure threading. Surprisingly, the linear combination of the two models is performing better than threading and than sequence alignment when the percentage of sequence identity is low. We finally suggest that further enrichment of substitution matrices, combing more structural descriptors such as exposed surface area, or secondary structure is expected to enhance the signal as well.

Algorithms↗

Heterogeneous sexual mixing in populations with arbitrarily connected multiple groups.

"A simple procedure for constructing [social/sexual] mixing models for arbitrarily classified (e.g. by sex, age, geographical location, sexual preference) populations is outlined, including a scheme for finding the number of independent mixing parameters required, and a simple (linear algebra) means for finding the values of the dependent mixing parameters. Various worked examples are presented, including the two-sex problem and structured and selective mixing." The use of the models for analyzing mixing structures for AIDS transmission is assessed. (SUMMARY IN FRE)

Acquired Immunodeficiency Syndrome↗