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At least 1,297 records · Page 72Linked to original sources

Morphogenetic pattern formation during ascidian notochord formation is regulative and highly robust.

The ascidian notochord forms through simultaneous invagination and convergent extension of a monolayer epithelial plate. Here we combine micromanipulation with time lapse and confocal microscopy to examine how notochord-intrinsic morphogenetic behaviors and interactions with surrounding tissues, determine these global patterns of movement. We show that notochord rudiments isolated at the 64-cell stage divide and become motile with normal timing; but, in the absence of interactions with non-notochordal tissues, they neither invaginate nor converge and extend. We find that notochord formation is robust in the sense that no particular neighboring tissue is required for notochord formation. Basal contact with either neural plate or anterior endoderm/lateral mesenchyme or posterior mesoderm are each alone sufficient to ensure that the notochord plate forms and extends a cylindrical rod. Surprisingly, the axis of convergent extension depends on the specific tissues that contact the notochord, as do other patterns of cell shape change, movement and tissue deformation that accompany notochord formation. We characterize one case in detail, namely, embryos lacking neural plates, in which a normal notochord forms but by an entirely different trajectory. Our results show ascidian notochord formation to be regulative in a fashion and to a degree never before appreciated. They suggest this regulative behavior depends on a complex interplay between morphogenetic tendencies intrinsic to the notochord plate and instructive and permissive interactions with surrounding tissues. We discuss mechanisms that could account for these data and what they imply about notochord morphogenesis and its evolution within the chordate phylum.

Animals↗

Detection of the t(11;18) API2/MALT1 translocation associated with gastric MALT lymphoma in routine formalin-fixed, paraffin-embedded small endoscopic biopsy specimens by robust real-time RT-PCR.

The t(11;18)(q21;q21) API2/MALT1 translocation is a specific chromosomal abnormality in extranodal marginal B-cell lymphomas of the mucosa-associated lymphoid tissue (MALT) type, particularly in those occurring in the stomach and lungs. Identification of t(11;18) may aid in the diagnosis of MALT lymphoma and strongly predicts resistance of gastric MALT lymphoma to Helicobacter pylori eradication therapy. We developed a robust real-time reverse transcription-polymerase chain reaction (RT-PCR) procedure to efficiently detect t(11;18) in virtually all types of specimens used in routine diagnostic workups. We blindly tested 40 samples from 38 patients with gastric MALT lymphoma; 10 (25%) of 40 samples, or 8 (21%) of 38 patients were positive for t(11;18). In contrast, t(11;18) was not detected in 8 cases of gastric large B-cell lymphoma, 11 cases of chronic active gastritis, and 16 samples unrelated to lymphoma. Our findings suggest that real-time RT-PCR for t(11;18) may be a valuable tool with much relevance in the current clinical management scheme.

Biopsy↗

Continuous and robust measures of the overweight epidemic: 1971-2000.

This article considers alternate measures of the overweight epidemic that are more robust to measurement error, continuous in the body-mass index (BMI) at the overweight threshold, and sensitive to changes in the BMI distribution. The measures suggest that prevalence rates may understate the severity of the overweight problem. Since 1971, the prevalence of overweight has increased by 37%, while the distribution-sensitive measure has increased by 173%. Furthermore, although Hispanics have the highest prevalence of overweight, the distribution-sensitive measures reveal that overweight Hispanics exceed the overweight threshold by the smallest proportion (21%), whereas overweight non-Hispanic blacks exceed the threshold by 33%, on average.

Adult↗

Design of a robust thin-film interference filter for erbium-doped fiber amplifier gain equalization.

Gain-flattening filters (GFFs) are key wavelength division multiplexing components in fiber-optics telecommunications. Challenging issues in the design of thin-film GFFs were recently the subject of a contest organized at the 2001 Conference on Optical Interference Coatings. The interest and main difficulty of the proposed problem was to minimize the sensitivity of a GFF to simulated fabrication errors. A high-yield solution and its design philosophy are described. The approach used to control the filter robustness is explained and illustrated by numerical results.

Journal Article↗

Robust monolithic ultraviolet interferometer for the SHIMMER instrument on STPSat-1.

We describe the design, fabrication, and testing of a monolithic interferometer consisting entirely of optically contacted fused-silica optical elements that are assembled, adjusted, and permanently bonded in place. The interferometer is part of a spatial heterodyne spectrometer (SHS) [SHIMMER (Spatial Heterodyne Imager for Mesospheric Radicals)] that will be used for near-ultraviolet high-spectral-resolution limb imaging of OH solar resonance fluorescence from low Earth orbit aboard the satellite STPSat-1 scheduled for launch in 2006. The stability of the monolith coupled with the relaxed tolerances on optical quality and alignment inherent to SHS make this new instrument extremely robust and especially attractive for applications in harsh environments.

Journal Article↗

Robust inference of baseline optical properties of the human head with three-dimensional segmentation from magnetic resonance imaging.

We model the capability of a small (6-optode) time-resolved diffuse optical tomography (DOT) system to infer baseline absorption and reduced scattering coefficients of the tissues of the human head (scalp, skull, and brain). Our heterogeneous three-dimensional diffusion forward model uses tissue geometry from segmented magnetic resonance (MR) data. Handling the inverse problem by use of Bayesian inference and introducing a realistic noise model, we predict coefficient error bars in terms of detected photon number and assumed model error. We demonstrate the large improvement that a MR-segmented model can provide: 2-10% error in brain coefficients (for 2 x 10(6) photons, 5% model error). We sample from the exact posterior and show robustness to numerical model error. This opens up the possibility of simultaneous DOT and MR for quantitative cortically constrained functional neuroimaging.

Bayes Theorem↗

Spectrally constrained chromophore and scattering near-infrared tomography provides quantitative and robust reconstruction.

A multispectral direct chromophore and scattering reconstruction technique has been implemented for near-infrared frequency-domain tomography in recovering images of total hemoglobin, oxygen saturation, water, and scatter parameters. The method applies the spectral constraint of the chromophores and scattering spectra directly in the reconstruction algorithm, thereby reducing the parameter space of the inversion process. This new method was validated by use of simulated and experimental data, and results show better robustness and stability in the presence of higher levels of noise. The method suppresses artifacts, especially those significant in water and scatter power images, and reduces cross talk between chromophore and scatter parameters. Variation in scattering was followed by this spectral approach successfully in experimental data from 90-mm-diameter cylindrical phantoms, and results show linear variation in scatter amplitude and reduced scattering coefficient (micro(s)'), with total hemoglobin, oxygen saturation, and water remaining constant and quantitatively accurate. Similar experiments were carried out for varying oxygen saturation and total hemoglobin. Accurate quantification was obtained with a mean error of 7.7% for oxygen saturation and 6.2% for total hemoglobin, with minimal cross talk between different parameters.

Algorithms↗

Robust, noniterative, and computationally efficient modification of van Cittert deconvolution optical figuring.

A modification of van Cittert deconvolution (VCD) is introduced and shown to yield a robust, noniterative (or closed-form), and numerically efficient method of deconvolution. This modification removes the restrictions limiting the applicability of conventional VCD only to shapes and relative positions of the convolved functions for which it converges, while also avoiding the ill effects of zeros in these functions. The resulting method is computationally efficient because it is noniterative and uses the fast Fourier transform. In contrast to the convergences obtained with VCD, those obtained with this modified method are ensured by their expansion in terms of an introduced auxiliary function rather than the convolved functions. This permits both the general removal of the above limitations and arbitrarily accurate deconvolution of infinitely sampled input data even in the presence of input data noise. For discretely sampled input data the accuracy of this modification is shown to be limited only by the implicit bandwidth of the input data density. To exemplify its numerical and analytical advantages, I apply the method to computer control of optical surface figuring. I also demonstrate an intrinsic means of optimal frequency filtering of raw input data made available by this modification. The advantages of this procedure are also applicable to image restoration.

Computer Simulation↗

Parametric blind deconvolution: a robust method for the simultaneous estimation of image and blur.

Blind-deconvolution microscopy, the simultaneous estimation of the specimen function and the point-spread function (PSF) of the microscope, is an underdetermined problem with nonunique solutions that are usually avoided by enforcing constraints on the specimen function and the PSF. We derived a maximum-likelihood-based method for blind deconvolution in which we assume a mathematical model for the PSF that depends on a small number of parameters (e.g., less than 20). The algorithm then estimates the unknown parameters together with the specimen function. The mathematical model ensures that all the constraints of the PSF are satisfied, and the maximum-likelihood approach ensures that the specimen is nonnegative. The method successfully estimates the PSF and removes out-of-focus blur. The PSF estimation is robust to aberrations in the PSF and to noise in the image.

Algorithms↗

Noise robustness of nonlinear filters for image recognition.

We analyze the performance of the Fourier plane nonlinear filters in terms of signal-to-noise ratio (SNR). We obtain a range of nonlinearities for which SNR is robust to the variations in input-noise bandwidth. This is shown both by analytical estimates of the SNR for nonlinear filters and by experimental simulations. Specifically, we analyze the SNR when Fourier plane nonlinearity is applied to the input signal. Using the Karhunen-Loève series expansion of the noise process, we obtain precise analytic expressions of the SNR for Fourier plane nonlinear filters in the presence of various types of additive-noise processes. We find a range of nonlinearities that need to be applied that keep the output SNR of the filter stable relative to changes in the noise bandwidth.

Journal Article↗

Local diffusion regularization method for optical tomography reconstruction by using robust statistics.

We formulate a solution to the diffuse optical tomography (DOT) inverse problem as the minimization of an energy functional of the solution and the data. For the solution prior we introduce a local diffusion regularization potential with a threshold based on robust statistics (the Hubert function). We compare results on simulated data for the Hubert function and two other standard regularization functionals, Tikhonov and total variation.

Algorithms↗

Breaking the limit of maximum effective area for robust single-mode propagation in optical fibers.

We propose and demonstrate a novel approach in optical fiber design in which the optical waveguide is formed by a ring of large air holes surrounding a solid silica core. With an appropriate choice of the geometrical configuration, robust single-transverse-mode propagation with a record effective area of 1417 microm2, verified by various methods, was demonstrated. A breakthrough was made toward the development of practical ultra-high-power fiber lasers as we observed negligible loss of the fiber at bending diameters as small as 15 cm.

Journal Article↗

Low-cost approaches to robust temperature compensation in near-infrared calibration and prediction situations.

The traditional way of handling temperature shifts and other perturbations in calibration situations is to incorporate the non-relevant spectral variation in the calibration set by measuring the samples at various conditions. The present paper proposes two low-cost approaches based on simulation and prior knowledge about the perturbations, and these are compared to traditional methods. The first approach is based on augmentation of the calibration matrix through adding simulated noise on the spectra. The second approach is a correction method that removes the non-relevant variation from new spectra. Neither method demands exact knowledge of the perturbation levels. Using the augmentation method it was found that a few, in this case four, selected samples run under different conditions gave approximately the same robustness as running all the calibration samples under different conditions. For the carbohydrate data set, all robustification methods investigated worked well, including the use of pure water spectra for temperature compensation. For the more complex meat data set, only the augmentation method gave comparable results to the full global model.

Algorithms↗

Fast and robust method for the determination of microstructure and composition in butadiene, styrene-butadiene, and isoprene rubber by near-infrared spectroscopy.

In the tire industry, synthetic styrene-butadiene rubber (SBR), butadiene rubber (BR), and isoprene rubber (IR) elastomers are essential for conferring to the product its properties of grip and rolling resistance. Their physical properties depend on their chemical composition, i. e., their microstructure and styrene content, which must be accurately controlled. This paper describes a fast, robust, and highly reproducible near-infrared analytical method for the quantitative determination of the microstructure and styrene content. The quantitative models are calculated with the help of pure spectral profiles estimated from a partial least squares (PLS) regression, using (13)C nuclear magnetic resonance (NMR) as the reference method. This versatile approach allows the models to be applied over a large range of compositions, from a single BR to an SBR-IR blend. The resulting quantitative predictions are independent of the sample path length. As a consequence, the sample preparation is solvent free and simplified with a very fast (five minutes) hot filming step of a bulk polymer piece. No precise thickness control is required. Thus, the operator effect becomes negligible and the method is easily transferable. The root mean square error of prediction, depending on the rubber composition, is between 0.7% and 1.3%. The reproducibility standard error is less than 0.2% in every case.

Journal Article↗

Phosphorescence of erythrosin B as a robust probe of molecular mobility in amorphous solid sucrose.

Luminescence from the triplet probe erythrosin B (tetra-iodo fluorescein, Ery B) provides spectroscopic characteristics such as lifetime and emission energy that are sensitive to molecular mobility of the local environment in amorphous solids. This study investigated how variations in the local concentration of Ery B free acid as well as the presence of the dispersing solvent affect the spectroscopic measurements of solid matrix properties (the free acid of Ery B is poorly soluble in water and thus must be introduced via an organic solvent). The emission energy of Ery B from 5 to 100 degrees C in thin films of amorphous sucrose at various probe and solvent (N,N-dimethyl formamide, DMF) concentrations was determined using excitation at 500 nm and emission over the range 520-750 nm. The emission lifetime was determined over the same temperature range using a stretched exponential analysis of intensity decays collected using excitation at 530 nm and emission at 680 nm. Variations in the probe/sucrose mole ratio (concentration) over the range from 0.5 to 10 x 10(-4) and 10-fold variations in the amount of DMF used to disperse the probe did not affect the emission energy, the shape of the emission spectra, or the measured lifetimes of Ery B in amorphous sucrose. These results thus indicate that erythrosin B introduced into amorphous solids can provide a robust measure of the intrinsic mobility of the solid matrix that is relatively insensitive to final probe concentration or presence of residual solvent.

Journal Article↗

Robustness and fragility in immunosenescence.

We construct a model to study tradeoffs associated with aging in the adaptive immune system, focusing on cumulative effects of replacing naive cells with memory cells. Binding affinities are characterized by a stochastic shape space model. System loss arising from an individual infection is associated with disease severity, as measured by the total antigen population over the course of an infection. We monitor evolution of cell populations on the shape space over a string of infections, and find that the distribution of losses becomes increasingly heavy-tailed with time. Initially this lowers the average loss: the memory cell population becomes tuned to the history of past exposures, reducing the loss of the system when subjected to a second, similar infection. This is accompanied by a corresponding increase in vulnerability to novel infections, which ultimately causes the expected loss to increase due to overspecialization, leading to increasing fragility with age (i.e., immunosenescence). In our model, immunosenescence is not the result of a performance degradation of some specific lymphocyte, but rather a natural consequence of the built-in mechanisms for system adaptation. This "robust, yet fragile" behavior is a key signature of Highly Optimized Tolerance.

Adaptation, Physiological↗

DARPP-32 is a robust integrator of dopamine and glutamate signals.

Integration of neurotransmitter and neuromodulator signals in the striatum plays a central role in the functions and dysfunctions of the basal ganglia. DARPP-32 is a key actor of this integration in the GABAergic medium-size spiny neurons, in particular in response to dopamine and glutamate. When phosphorylated by cAMP-dependent protein kinase (PKA), DARPP-32 inhibits protein phosphatase-1 (PP1), whereas when phosphorylated by cyclin-dependent kinase 5 (CDK5) it inhibits PKA. DARPP-32 is also regulated by casein kinases and by several protein phosphatases. These complex and intricate regulations make simple predictions of DARPP-32 dynamic behaviour virtually impossible. We used detailed quantitative modelling of the regulation of DARPP-32 phosphorylation to improve our understanding of its function. The models included all the combinations of the three best-characterized phosphorylation sites of DARPP-32, their regulation by kinases and phosphatases, and the regulation of those enzymes by cAMP and Ca(2+) signals. Dynamic simulations allowed us to observe the temporal relationships between cAMP and Ca(2+) signals. We confirmed that the proposed regulation of protein phosphatase-2A (PP2A) by calcium can account for the observed decrease of Threonine 75 phosphorylation upon glutamate receptor activation. DARPP-32 is not simply a switch between PP1-inhibiting and PKA-inhibiting states. Sensitivity analysis showed that CDK5 activity is a major regulator of the response, as previously suggested. Conversely, the strength of the regulation of PP2A by PKA or by calcium had little effect on the PP1-inhibiting function of DARPP-32 in these conditions. The simulations showed that DARPP-32 is not only a robust signal integrator, but that its response also depends on the delay between cAMP and calcium signals affecting the response to the latter. This integration did not depend on the concentration of DARPP-32, while the absolute effect on PP1 varied linearly. In silico mutants showed that Ser137 phosphorylation affects the influence of the delay between dopamine and glutamate, and that constitutive phosphorylation in Ser137 transforms DARPP-32 in a quasi-irreversible switch. This work is a first attempt to better understand the complex interactions between cAMP and Ca(2+) regulation of DARPP-32. Progressive inclusion of additional components should lead to a realistic model of signalling networks underlying the function of striatal neurons.

Basal Ganglia↗