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Strategies for coupling digital filtering with partial least-squares regression: application to the determination of glucose in plasma by Fourier transform near-infrared spectroscopy.

Protocols are established for coupling digital filtering techniques with partial least-squares (PLS) regression for use in constructing multivariate calibration models from Fourier transform near-infrared absorbance spectra. Calibration models are developed to predict glucose concentrations in bovine plasma samples. Employing a calibration data set of 300 spectra collected from 55 plasma samples and 3 plasma lots, individual calibration models are developed based on four spectral ranges selected from the region 5000-4000 cm-1. A separate test set of 69 spectra collected from 14 plasma samples is used to evaluate the computed models. Gaussian-shaped bandpass digital filters are implemented by use of Fourier filtering techniques and employed to preprocess spectra to remove variation due to the background absorbance of the plasma matrix. PLS regression is used with the filtered spectra to compute calibration models for glucose. The optimization of the filter bandpass parameters is explored through the use of response surface methods. Through these optimization studies, calibration models are developed that achieve standard errors of estimate and standard errors of prediction in the range 0.4-0.5 mM across the concentration range of 2.5-25.5 mM. It is determined that the use of digital filtering as a preprocessing step significantly improves the performance of the resulting calibration models, minimizes the importance of spectral range in the calibration model development, and reduces the required number of PLS factors in each model.

Animals↗

Electrically stimulated sartorius neosphincter: canine model of activation and skeletal muscle transformation.

The sartorius muscle was transposed into the abdominal cavity of six dogs, passed around a Thiry-Vella loop and sutured to itself to form a neosphincter. The muscle was activated by electrical stimulation and on contraction the neosphincter stopped or reduced the flow of saline through the Thiry-Vella loop in all animals until the onset of muscle fatigue. Continuous low frequency stimulation was used to transform the skeletal muscle, and when studied after a mean of 8 weeks of stimulation (range 6-11 weeks) the neosphincter stopped the flow for a significantly longer period of time (P = 0.027). Associated with the improved neosphincter function was a significant decrease in the fusion frequency (P = 0.003) and prolongation of the stimulus-peak tension time as assessed by a strain gauge sutured to the neosphincter muscle (P = 0.002). The changes in the contraction properties of the skeletal muscle suggest that continuous low frequency stimulation transformed the muscle fibres from type 2 to type 1, resulting in improved fatigue resistance and potential for continuous sphincter activity.

Animals↗

Effect of anti-inflammatory agents on transforming growth factor beta over-expressing mouse brains: a model revised.

BACKGROUND: The over-expression of transforming growth factor beta-1(TGF-beta1) has been reported to cause hydrocephalus, glia activation, and vascular amyloidbeta (Abeta) deposition in mouse brains. Since these phenomena partially mimic the cerebral amyloid angiopathy (CAA) concomitant to Alzheimer's disease, the findings in TGF-beta1 over-expressing mice prompted the hypothesis that CAA could be caused or enhanced by the abnormal production of TGF-beta1. This idea was in accordance with the view that chronic inflammation contributes to Alzheimer's disease, and drew attention to the therapeutic potential of anti-inflammatory drugs for the treatment of Abeta-elicited CAA. We thus studied the effect of anti-inflammatory drug administration in TGF-beta1-induced pathology. METHODS: Two-month-old TGF-beta1 mice and littermate controls were orally administered pioglitazone, a peroxisome proliferator-activated receptor-gamma agonist, or ibuprofen, a non steroidal anti-inflammatory agent, for two months. Glia activation was assessed by immunohistochemistry and western blot analysis; Abeta precursor protein (APP) by western blot analysis; Abeta deposition by immunohistochemistry, thioflavin-S staining and ELISA; and hydrocephalus by measurements of ventricle size on autoradiographies of brain sections. Results are expressed as means +/- SD. Data comparisons were carried with the Student's T test when two groups were compared, or ANOVA analysis when more than three groups were analyzed. RESULTS: Animals displayed glia activation, hydrocephalus and a robust thioflavin-S-positive vascular deposition. Unexpectedly, these deposits contained no Abeta or serum amyloid P component, a common constituent of amyloid deposits. The thioflavin-S-positive material thus remains to be identified. Pioglitazone decreased glia activation and basal levels of Abeta42- with no change in APP contents - while it increased hydrocephalus, and had no effect on the thioflavin-S deposits. Ibuprofen mimicked the reduction of glia activation caused by pioglitazone and the lack of effect on the thioflavin-S-labeled deposits. CONCLUSIONS: i) TGF-beta1 over-expressing mice may not be an appropriate model of Abeta-elicited CAA; and ii) pioglitazone has paradoxical effects on TGF-beta1-induced pathology suggesting that anti-inflammatory therapy may reduce the damage resulting from active glia, but not from vascular alterations or hydrocephalus. Identification of the thioflavin-S-positive material will facilitate the full appraisal of the clinical implication of the effects of anti-inflammatory drugs, and provide a more thorough understanding of TGF-beta1 actions in brain.

Journal Article↗

[Bone response to unphysiological mechanical stress. A histomorphological study on modelling and remodelling of Martin's transformation zone in the ulna].

In this study the morphological changes in the shape and structure of the ulna were investigated following resection of a mid-shaft segment in the radius. These morphological alterations are called in German "Martin'sche Umbauzone" (MUZ; Martin's transformation zone). Various explanations for the MUZ can be found in the literature; Wolff's law, in particular, offers hints about the development of this phenomenon. The morphological changes in the ulna were investigated by microangiography, polarized light and fluorescence microscopy as well as by micro-radiography. The radius was operated on in 36 mongrel dogs. The development and localization of new bone formation at the endosteal and periosteal envelope of the ulna were studied. The woven bone formation of the envelopes (modelling) and the intracortical remodelling in the distal part of the ulnae were compared with the intact ulnae of the opposite extremities. It is concluded from these morphological alterations that the experimental design chosen provides a valuable, tissue-related model for the investigation of morphogenesis in bones. Further investigations will deal with the correlation between strain and new bone formation.

Animals↗

Directional multiscale modeling of images using the contourlet transform.

The contourlet transform is a new two-dimensional extension of the wavelet transform using multiscale and directional filter banks. The contourlet expansion is composed of basis images oriented at various directions in multiple scales, with flexible aspect ratios. Given this rich set of basis images, the contourlet transform effectively captures smooth contours that are the dominant feature in natural images. We begin with a detailed study on the statistics of the contourlet coefficients of natural images: using histograms to estimate the marginal and joint distributions and mutual information to measure the dependencies between coefficients. This study reveals the highly non-Gaussian marginal statistics and strong interlocation, interscale, and interdirection dependencies of contourlet coefficients. We also find that conditioned on the magnitudes of their generalized neighborhood coefficients, contourlet coefficients can be approximately modeled as Gaussian random variables. Based on these findings, we model contourlet coefficients using a hidden Markov tree (HMT) model with Gaussian mixtures that can capture all interscale, interdirection, and interlocation dependencies. We present experimental results using this model in image denoising and texture retrieval applications. In denoising, the contourlet HMT outperforms other wavelet methods in terms of visual quality, especially around edges. In texture retrieval, it shows improvements in performance for various oriented textures.

Algorithms↗

Problem-posing in education: transformation of the practice of the health professional.

This study was developed by a group of professionals from different areas (nurses and educators) concerned with health education. It proposes the use of a problem-posing model for the transformation of professional practice. The concept and functions of the model and their relationships with the educative practice of health professionals are discussed. The model of problem-posing education is presented (compared to traditional, "banking" education), and four innovative experiences of teaching-learning are reported based on this model. These experiences, carried out in areas of environmental and occupational health and patient education have shown the applicability of the problem-posing model to the practice of the health professional, allowing transformation.

Health Education↗

Silencing of H-ras gene expression by retrovirus-mediated siRNA decreases transformation efficiency and tumorgrowth in a model of human ovarian cancer.

To examine the role of H-ras in the development of human ovarian cancer, we used small inhibitory RNA (siRNA) to silence its expression in human ovarian cancer cell lines and assessed the effects of its silencing on proliferation, apoptosis, and tumorgrowth. First, we developed a retrovirus-based delivery system that allowed long-term stable expression of the desired siRNA. Retrovirus-mediated expression of siRNA against green fluorescence protein (GFP) reduced its expression more than 90% in four cancer cell lines. We then constructed three retroviruses that expressed siRNAs targeting the H-rasV(12) mutation (H1/siRNA) or either of two wild-type sequences of the H-ras gene (H2/siRNA and H3/siRNA) and used these retroviruses to infect T80H and SKOV-3 cells. In T80H cells (a genetically transformed human ovarian surface epithelial cell line whose tumorigenicity depends on H-rasV(12) expression), infection with the H1/siRNA and H2/siRNA, but not with H3/siRNA, decreased T80H proliferation, increased G(0)/G(1) arrest and apoptosis, blocked transformation in vitro, and suppressed tumor growth in nude mice. In SKOV-3 cells (a human ovarian cancer cell line that contains high levels of wild-type H-ras protein but no H-rasV(12) mutation), introduction of the H2/siRNA construct, but not H1/siRNA or H3/siRNA, produced similar effects, demonstrating that the suppression of tumorgrowth by siRNA was sequence-specific. We conclude that H-ras is involved in maintenance of tumorgrowth of human ovarian cancer, and that retrovirus-mediated siRNA expression against H-ras expression is a powerful tool to dissect ras-signaling pathways and may be used therapeutically against ovarian cancer.

Animals↗

Low dimensional attractors in discharges of sensory neurons of the rat spinal dorsal horn are maintained by supraspinal descending systems.

Background activity was recorded from sensory neurons in laminae I-V of the lumbar spinal dorsal horn of the rat prior to and during cold block spinalization at the cervical cord. To graphically and quantitatively describe the complexity of the discharge patterns, phase space portraits were plotted and the correlation dimension D2 was calculated by using the Grassberger-Procaccia algorithm adopted for point processes, i.e. for series of interspike intervals. The algorithm is validated both for the Baker transformation, which is a simple point process, and for the Lorenz model, whereby a transformation from continuous to point process variables is achieved. A method of surrogate data is provided in order to show the difference between original neuronal patterns and their surrogate stochastic data. Therefore, this method shows that neuronal discharge patterns cannot be fully described in terms of interspike interval histograms. However, in the intact cord most (73%) of the neurons displayed background activity with low (0.28-4.3) D2 values. During spinalization, D2 values significantly increased in 68% of the neurons showing previously low D2 values, irrespective of classification and laminar location of neurons, thus proving that tonic descending systems may maintain a high order in the discharge of sensory dorsal horn neurons.

Animals↗

Coupling of neural activation to blood flow in the somatosensory cortex of rats is time-intensity separable, but not linear.

Changes in cerebral blood flow (CBF) because of functional activation are used as a surrogate for neural activity in many functional neuroimaging studies. In these studies, it is often assumed that the CBF response is a linear-time invariant (LTI) transform of the underlying neural activity. By using a previously developed animal model system of electrical forepaw stimulation in rats (n = 11), laser Doppler measurements of CBF, and somatosensory evoked potentials, measurements of neural activity were obtained when the stimulus duration and intensity were separately varied. These two sets of time series data were used to assess the LTI assumption. The CBF data were modeled as a transform of neural activity (N1-P2 amplitude of the somatosensory evoked potential) by using first-order (linear) and second-order (nonlinear) components. Although a pure LTI model explained a large amount of the variance in the data for changes in stimulus duration, our results demonstrated that the second-order kernel (i.e., a nonlinear component) contributed an explanatory component that is both statistically significant and appreciable in magnitude. For variations in stimulus intensity, a pure LTI model explained almost all of the variance in the CBF data. In particular, the shape of the CBF response did not depend on intensity of neural activity when duration was held constant (time-intensity separability). These results have important implications for the analysis and interpretation of neuroimaging data.

Animals↗

Epstein-Barr virus transformed lymphoid cell lines as a new model system in culture for the study of GM2-gangliosidoses: Tay-Sachs and Sandhoff diseases.

Epstein-Barr Virus transformed cell lines (LCL) were established from blood B-lymphocytes of patients affected with GM2-gangliosidoses variant O (Sandhoff disease, SD) and variant B (Tay-Sachs disease, TSD). LCL from SD showed a severe deficiency of activity of the major lysosomal beta-N-acetylhexosaminidase isoenzymes, Hex A and B; the residual activity was due to Hex S and Hex C. In LCL from TSD, the whole Hex activity was not deficient but isoenzyme composition was completely abnormal. Ultrastructural investigations showed the presence of pleiomorphic enlarged lysosomes appearing as clear vacuoles containing a finely fibrillo-granular material characteristic of the visceral lysosomal storage of gangliosidoses.

Adult↗

Characterization of heart atrial fibrillation: proposal for a deterministic model.

Atrial Fibrillation (AFib) has been shown (e.g. Framingham Study) to increase stroke risk and to induce low cardiac output in patients. It is generally accepted that the mechanism of Atrial Fibrillation is reentry. In order to ease the study of AFib's, we propose a deterministic model that could be used in the characterization cardiac signals. The model is based on a linear combination of several "Atrial Flutter"-like signals. We therefore obtained AFib-like aspects. To demonstrate its usefulness we performed a power spectrum transform (i.e. scalar Fast Fourier Transform) of this model. As a result we found that this transform could not be used as is, could lead to errors in the interpretation of results. We expect that this model will help us to evaluate the relevance of mathematical transforms. This may lead to new findings in the classification of AFib, as well as to improvements in patients treatment, follow-up and survival.

Atrial Fibrillation↗

Histone deacetylase inhibition-mediated post-translational elevation of p27KIP1 protein levels is required for G1 arrest in fibroblasts.

Butyrate, a non-toxic short-chain fatty acid (SCFA) and inhibitor of histone deacetylase (HDAC), has potential as an anti-tumor agent because it imposes a reversible G1 block in normal cells yet induces apoptosis in tumor lines. As a potent reactivator of fetal globin transcription, butyrate is used clinically in the treatment of hemoglobinopathies. The anti-proliferative effect of butyrate and its derivatives on in vivo erythroid cell maturation, however, has limited their utility. The molecular mechanisms underlying the G1 arrest induced by butyrate and related SCFAs remain unclear. One model, drawing on tumor cell data, proposes that HDAC inhibition and subsequent transcriptional induction of cyclin-dependent kinase inhibitor (CKI) p21CIP are required. However, because of potentially confounding genetic mutations present in tumor models, we examined SCFA effects on CKIs in a non-transformed growth control model. Using murine 3T3 fibroblasts, we find p27KIP1 is also strongly induced. Unlike previously described effects of butyrate and HDAC inhibition on p21CIP, p27KIP1 induction did not occur at the transcriptional level; instead, the stability of the p27KIP1 protein increased. Other structurally unrelated HDAC inhibitors, including trichostatin A (TSA), induced p27KIP1 similarly. p27KIP1 was found in cyclin E/Cdk2 complexes, concomitant with suppression of cdk2 activity. Elevation of p27KIP1 is required for the observed G1 blockade, as p27KIP1-deficient fibroblasts were resistant to HDAC inhibition-induced arrest. These data suggest a novel activity for HDAC inhibitors and demonstrate a critical role for p27KIP1 in mediating G1 arrest in response to these drugs.

Animals↗

An in vitro model to study mesenchymal-epithelial transformation.

Mesenchymal-epithelial transformation (MET) is an important process in the embryogenesis of organisms. In an attempt to study the mechanism of MET, we present here the identification of a cloned human chondrosarcoma cell line, the SW1353, that is capable of converting to cells with an obvious epithelial phenotype. The transformation of the fibroblast-like SW1353 cells to epithelial cells occurred in a defined culture condition and the transformed cells displayed features characteristic expected to be epithelial cells and formed aggregates with cobblestone appearances. We also demonstrated that SW1353 cells not only secreted hepatic growth factor (HGF)/scatter factor (SF) but also expressed large amounts of p140c-met, the receptor tyrosine kinase for HGF/SF. These results suggest that mesenchymal cells, like epithelial cells, are able to express c-met proto-oncogene product, and the SW1353 cell culture system can provide us with a potential avenue to identify genes responsible for MET.

Animals↗

Mineral changes in a mouse model of osteogenesis imperfecta detected by Fourier transform infrared microscopy.

Osteogenesis imperfecta (OI) is a heritable disease characterized by skeletal deformities and brittle bones. In the current study, the nature of the mineral in long bones of a mouse model of OI (oim/oim, a mutant which produces an alpha 1(I) collagen homotrimer) was examined by Fourier transform infrared microscopy. The mineral:matrix ratio of oim/oim cortical bone was greater than that of the heterozygous oim/+ and of the normal +/+ bones, probably as a result of reduced collagen content. The molecular environments of the apatitic phosphates differed among the oim/oim and the oim/+ and the +/+ bones. This was attributable to several factors, including dissimilar mineral-matrix interactions and differences in the chemical composition of the mineral. It was concluded from these data that the defective collagen matrix leads to abnormal mineral formation at the molecular level and thus results in tissues with reduced mechanical properties.

Animals↗

Effects on NaeI-DNA recognition of the leucine to lysine substitution that transforms restriction endonuclease NaeI to a topoisomerase: a model for restriction endonuclease evolution.

Substituting lysine for leucine at position 43 (L43K) transforms NaeI from restriction endonuclease to topoisomerase and makes NaeI hypersensitive to intercalative anticancer drugs. Here we investigated DNA recognition by Nael-L43K. Using DNA competition and gel retardation assays, NaeI-L43K showed reduced affinity for DNA substrate and the ability to bind both single- and double-stranded DNA with a definite preference for the former. Sedimentation studies showed that under native conditions NaeI-L43K, like NaeI, is a dimer. Introduction of mismatched bases into double-stranded DNA significantly increased that DNA's ability to inhibit NaeI-L43K. Wild-type NaeI showed no detectable binding of either single-stranded DNA or mismatched DNA over the concentration range studied. These results demonstrate that the L43K substitution caused a significant change in recognition specificity by NaeI and imply that NaeI-L43K's topoisomerase activity is related to its ability to bind single-stranded and distorted regions in DNA. A mechanism is proposed for the evolution of the NaeI restriction-modification system from a topoisomerase/ligase by a mutation that abolished religation activity and provided a needed change in DNA recognition.

DNA↗

X-ray diffraction studies of 14-filament models of deoxygenated sickle cell hemoglobin fibers. II. Models based on the deoxygenated sickle hemoglobin crystal structure.

The calculated transforms of a number of crystal-based models of the deoxygenated sickle cell hemoglobin fiber have been compared with X-ray diffraction data of 15 A (1 A = 0.1 nm) resolution. The fiber models consist of 14 single strands of sickle cell hemoglobin (HbS) molecules, which associate into seven protofilaments arranged similarly to those present in the crystal structure. Six of the protofilaments are arranged in three crystallographic until cells extending in the c-axis direction with the seventh protofilament positioned so as to provide an elliptical cross-section when the assemblage is viewed down the fiber axis. Models were generated by systematically and independently translating each of the model's three subcells in steps of 3.5 A along the fiber axis. The seventh protofilament was kept fixed as a point of reference. Each translation of a subcell corresponded to a different fiber model whose transform was then compared with observed data. In all, over 46,000 transforms were computed; of these, three models with minimal residuals were identified. The free energy of packing for all crystal-based models was evaluated to find configurations of protofilaments possessing minimal free energies. The results of the calculations support the subcell configurations of two of the three models with minimal residuals.

Hemoglobin, Sickle↗

A model of chronic lymphocytic leukemia with Ritcher's transformation in severe combined immunodeficiency mice.

OBJECTIVE: The major aim of the study was to establish a murine model of chronic lymphocytic leukemia with B-1 cells derived from a New Zealand white mouse. MATERIAL AND METHODS: Malignant B-1 cells (named CLL-RT cells) derived from a New Zealand white mouse were injected into the peritoneal cavity of severe combined immunodeficiency mice. Upon follow-up of recipient mice, the lymphomas showed characteristics similar to chronic lymphocytic leukemia (CLL) with Ritcher's transformation. RESULTS: Blood samples from the recipient mice showed that CLL-RT cells increased rapidly in peripheral blood after 5 weeks. Serum interleukin-10 also increased significantly in recipient mice, as in human chronic lymphocytic leukemia patients. These CLL-RT cells showed a high nucleus-to-cytoplasm ratio. These cells could metastasize via circulation in the recipients and form diffuse lymphomas in various tissues. These aggressive and diffuse lymphomas were similar to Ritcher's transformation of human CLL. The cell surface antigens of the spleen and peritoneal resident cells were analyzed by flow cytometry. The CLL-RT cells constantly expressed surface immunoglobulins M and G, and CD5, CD19, B220, and CD40 molecules. They did not express any CD11b, CD3, MAC-3, CD23, NK1.1, or H-2K(d) molecules. CONCLUSIONS: The characteristics of our animal model are very similar to human CLL. This animal system could be an ideal model for the human disease. We believe the animal model would be valuable in therapeutic studies and aid in the identification of the specific genetic alleles associated with the disease.

Animals↗