gebhart/patrepeval huggingface dataset:
Determination of pavement layer thicknesses and moduli by SASW method (1988)

Nondestructive tests are being used more than ever in evaluating the integrity of existing pavement systems. The nondestructive tests can be divided into two main categories: (1) deflection-based methods, in which devices such as the Falling Weight Deflectometer (FWD) and dynaflect are used, and (2) wave propagation methods such as the Spectral-Analysis-of-Surface-Waves (SASW) method. The SASW method has several significant advantages over deflection-based methods. One advantage is that moduli of thin pavement layers in the upper portion of the pavement system can be easily and accurately measured. A second advantage is that variations in moduli within different layers, especially in the lower portions of the base and in the subgrade, can be evaluated. This feature is particularly beneficial when bedrock is close to surface. A third advantage is that layering in the pavement system does not have to be known. In fact, the thickness of the layers can be determined as illustrated in the modulus profiles presented in the paper. A series of tests was performed at nine flexible pavement sections with significantly different profiles to evaluate the accuracy of layer thickness determination by the SASW method. The thicknesses of the asphaltic-concrete surface layer varied between 1 and 5 in. The base and subbase materials consisted of substantially different materials. No information regarding the types or thicknesses of the layers was provided during data collection or reduction. Only after the results were reported to the Texas State Highway Department were the pavement profiles known. It was found that the SASW method predicted the thicknesses of the layers quite closely. In addition, moduli determined by the SASW method were compared with moduli back-calculated from FWD tests performed at the same sites. The variation in moduli of similar materials used at different sections exhibit somewhat less scatter when obtained from SASW tests. However similar trends were found with both methods.
Sonographic Diagnosis of Ovarian Torsion (2011)

In the setting of a specialized ultrasound unit, sonographic diagnosis of ovarian torsion had high (74.6%) accuracy compared with previous reports. The absence of typical sonographic signs does not rule out ovarian torsion, especially when the clinical presentation is suggestive. Basing assessments on multiple sonographic signs, including Doppler evaluation, increases the diagnostic specificity.
Wind farm layout design optimization through multi-scenario decomposition with complementarity constraints (2014)

This article presents a multi-scenario decomposition with complementarity constraints approach to wind farm layout design to maximize wind energy production under region boundary and inter-turbine distance constraints. A complementarity formulation technique is introduced such that the wind farm layout design can be described with a continuously differentiable optimization model, and a multi-scenario decomposition approach is proposed to ensure efficient solution with local optimality. To combine global exploration and local optimization, a hybrid solution algorithm is presented, which combines the multi-scenario approach with a bi-objective genetic algorithm that maximizes energy production and minimizes constraint violations simultaneously. A numerical case study demonstrates the effectiveness of the proposed approach.
Like Attracts Like: Getting RNA Processing Together in the Nucleus (2000)

Structures visible within the eukaryotic nucleus have fascinated generations of biologists. Recent data show that these structures form in response to gene expression and are highly dynamic in living cells. RNA processing and assembly require many factors but the nucleus apparently lacks any active transport system to deliver these to the RNAs. Instead, processing factors move by diffusion but are concentrated by transient association with functionally related components. At sites of high activity this gives rise to visible structures, with components in dynamic equilibrium with the surrounding nucleoplasm. Processing factors are recruited from this pool by cooperative binding to RNA substrates.
Overexpression of semicarbazide‐sensitive amine oxidase in human myopathies (2004)

Oxidative stress has been implicated in the pathogenesis of several muscle diseases. Semicarbazide-sensitive amine oxidase (SSAO) metabolizes oxidative deamination of primary aromatic and aliphatic amines. In the oxidative reactions, amine substrates are converted into the aldehyde, followed by the production of ammonia and H(2)O(2). Although normal levels in muscle are very low, SSAO is expressed in almost all mammalian tissues. In this study, we examined the possible implication of SSAO as an additional source of oxidative stress in the pathogenesis of muscle disorders. The expression of SSAO was examined immunohistochemically in muscle biopsy specimens from patients with inclusion-body myositis (IBM; n = 5), desmin-related myopathy (DRM; n = 3), dermatomyositis (n = 3), granulomatous (sarcoid) myopathy (n = 2), muscle denervation-reinnervation (n = 3), and rhabdomyolysis (n = 2), as well as from control subjects (n = 3). Strong SSAO immunoreactivity was present in vacuolated and nonvacuolated fibers in IBM, in abnormal fibers in DRM, and in degenerating and regenerating fibers in dermatomyositis and rhabdomyolysis. In addition, SSAO overexpression was observed in muscle fibers adjacent to granulomas in sarcoid myopathy. These results suggest that SSAO is a source of oxidative stress in diseased human skeletal muscle and that it contributes to oxidative stress-induced damage in various inflammatory and other myopathies. Alternatively, the expression of SSAO in muscle fibers may be a consequence of muscle fiber injury.
Wavelet SDF-Reps: Solid Modeling With Volumetric Scans (2007)

This paper describes a new formulation of solid modeling that addresses the issue of including parts whose geometry is determined from volumetric scans (CT, MRI, PET, etc.) along with parts whose geometry is designed by traditional computer-aided design (CAD) operations. Such issues arise frequently in the design of medical devices or prostheses where fit and/or interference between man-made artifacts and existing anatomy are essential considerations, but the modeling formulation presented is not limited to medical applications and can be applied to any parts whose volume can be actually or virtually scanned. Scanner data typically comprises a grid of intensity values and segmentation must be performed to determine the extent of the part. In current practice, the segmented scanner data is run through a polygonizer to obtain an approximate tessellation of the object’s surface. Even in the best case scenario where the triangles obtained form a closed surface that accurately approximates the surface of the scanned object, such triangulated models can be problematic due to excessive size. We present an alternative approach based on recent advances in segmentation with level set methods. The output of the level set computation is a grid of approximate values for the signed distance from each grid point to the nearest point on the surface of the scanned object. We propose interpolating the grid of signed distance values to obtain an implicit or function-based representation (f-rep) for the object, and we introduce appropriate wavelets to effectively perform the interpolation while also providing a number of other useful properties including data compression, inherently multi-scale modeling, and capabilities for skeletal-based modeling operations.
Three-Dimensional Representation and Analysis of Brain Energy Metabolism (1987)

Quantitative autoradiography of brain glucose metabolism has been combined with digital image processing to represent the brain as a three-dimensional (3-D) reconstruction of brain energy use. Autoradiographs contain enormous amounts of potentially useful data, but conventional analyses, based on tedious manual methods, can sample and analyze only a small portion of this information. Computer 3-D reconstruction provides a mechanism for observing and analyzing all the data; therefore, a system of computer programs was developed for this purpose. The programs use digital imaging methods for image registration, superimpose whole brain data sets, and allow resampling of the 3-D data in arbitrary planes for pixel-by-pixel comparisons among multiple 3-D sets. These programs operate on the mathematical properties of the images alone, obviating the need for manual image alignment. Various statistical analyses can be applied to the data directly to study the patterns of metabolic changes in different experiments. The system is applied to data from experiments on the influence of injectable anesthetics on cerebral glucose metabolism.
Substituent Effects on Aryltrifluoroborate Solvolysis in Water: Implications for Suzuki−Miyaura Coupling and the Design of Stable <sup>18</sup>F-Labeled Aryltrifluoroborates for Use in PET Imaging (2008)

Whereas electron withdrawing substituents retard the rate of aryltrifluoroborate solvolysis, electron-donating groups enhance it. Herein is presented a Hammett analysis of the solvolytic lability of aryltrifluoroborates where log(k(solv)) values correlate to sigma values with a rho value of approximately -1. This work provides a predictable rubric for tuning the reactivity of boron for several uses including (18)F-labeled PET reagents and has mechanistic implications for ArBF(3)-enhanced ligandless metal-mediated cross coupling reactions with aryltrifluoroborates.
Electrical isolation and characteristics of permanent magnet-actuated valves for PDMS microfluidics (2010)

This paper presents a magnetically driven valve via a permanent magnet pressing a spacer against deformable polydimethylsiloxane (PDMS) to fully close a microchannel. Its ability for electrical isolation, time response, and resistance to backpressure are interrogated. Simulation of the valve closing process was commenced along with experimental verification. Effects of PDMS thickness, and dimension and aspect ratio of microchannels were characterized. Up to 10 GΩ electrical isolation was demonstrated, as well as 50-70 ms valve response and ∼200 kPa resistible pressure. On-demand actuation for arbitrary flow patterns further quantifies its utility. With advantages of simple fabrication, flexible valving location, and no external power requirement, the on/off valve could be leveraged for proof-of-concept microfluidic devices and other applications.
Causality in Economics and Econometrics (2008)

Economics was conceived as early as the classical period as a science of causes. The philosopher–economists David Hume and J. S. Mill developed the conceptions of causality that remain implicit in economics today. This article traces the history of causality in economics and econometrics, showing that different approaches can be classified on two dimensions: process versus structural approaches, and a priori versus inferential approaches. The variety of modern approaches to causal inference is explained and related to this classification. Causality is also examined in relationship to exogeneity and identification.
Identification of Nogo as a novel indicator of heart failure (2007)

Numerous genetically engineered animal models of heart failure (HF) exhibit multiple characteristics of human HF, including aberrant beta-adrenergic signaling. Several of these HF models can be rescued by cardiac-targeted expression of the Gbetagamma inhibitory carboxy-terminus of the beta-adrenergic receptor kinase (betaARKct). We recently reported microarray analysis of gene expression in multiple animal models of HF and their betaARKct rescue, where we identified gene expression patterns distinct and predictive of HF and rescue. We have further investigated the muscle LIM protein knockout model of HF (MLP-/-), which closely parallels human dilated cardiomyopathy disease progression and aberrant beta-adrenergic signaling, and their betaARKct rescue. A group of known and novel genes was identified and validated by quantitative real-time PCR whose expression levels predicted phenotype in both the larger HF group and in the MLP-/- subset. One of these novel genes is herein identified as Nogo, a protein widely studied in the nervous system, where it plays a role in regeneration. Nogo expression is altered in HF and normalized with rescue, in an isoform-specific manner, using left ventricular tissue harvested from both animal and human subjects. To investigate cell type-specific expression of Nogo in the heart, immunofluorescence and confocal microscopy were utilized. Nogo expression appears to be most clearly associated with cardiac fibroblasts. To our knowledge, this is the first report to demonstrate the relationship between Nogo expression and HF, including cell-type specificity, in both mouse and human HF and phenotypic rescue.
Line of sight reconstruction for faster homing guidance (1983)

A novel way to generate the signal required for homing guidance is to reconstruct the line of sight angle by combining seeker boresi ht error with an integrated rate gyro signal (1.2,3,1,5). The paper shows that line-of-sight (LQS) reconstruction allows reduced stabilization loop gain requirements over other guidance implementations. For a given stabilization loop gain, faster guidance system time constants can be achieved with LQS reconstruction, thus enabling the guidance system to achieve more accurate hominq than other implementations.
Algorithme de calcul de l'arbre des composantes avec applications à la reconnaissance des formes en imagerie satellitaire (2007)

In this paper a new algorithm to compute the component tree is presented. As compared to the state-of-the-art, this algorithm does not use excessive memory and is able to work eciently on images whose values are highly quantized or even with images having oating values. We also describe how it can be applied to astronomical data to identify relevant objects.
Cooperative inhibition of NF-kappa B and Tat-induced superactivation of human immunodeficiency virus type 1 long terminal repeat. (1993)

Human immunodeficiency virus type 1 (HIV-1) long terminal repeat (LTR)-regulated gene expression is stimulated independently by the cellular trans-activator NF-kappa B and the viral protein Tat. Noncytotoxic concentrations of the drug pentoxifylline (PTX) inhibited interaction of NF-kappa B with its motif and the stimulation of HIV-1 LTR-driven gene expression in Jurkat cells. Tat protein (from a cotransfected Tat-expression vector) also induced activation of HIV-1 LTR-driven gene expression. This activation was unaffected by PTX when NF-kappa B sites in the HIV-1 LTR were mutated, suggesting that this drug does not directly influence Tat function, which, however, was inhibited by the Tat-inhibitor Ro 24-7429. Transient reporter gene expression regulated by HIV-1 LTR with wild-type NF-kappa B motifs in the presence of Tat protein was 10- to 60-fold higher than in the presence of either of the trans-activators alone, demonstrating superactivation of HIV-1 LTR by the concerted action of both the trans-activators. Treatment of cells with either PTX or Ro 24-7429 inhibited this superactivation of the HIV-1 LTR. The inhibitory effect of these two drugs in combination, at concentrations that alone did not significantly influence viral promoter activity, was far more than additive. A cooperative action of PTX (NF-kappa B inhibitor) and Ro 24-7429 (Tat inhibitor) on HIV-1 LTR-regulated gene expression is suggested. Concentrations of the drugs that induced maximum inhibition of HIV-1 LTR through their cooperative action are far below cytotoxic levels. Thus, the combination of these two inhibitors could be very effective for anti-HIV therapy.
A Novel Cylindrical Biaxial Computer-Controlled Bioreactor and Biomechanical Testing Device for Vascular Tissue Engineering (2009)

It is becoming evident that tissue-engineered constructs adapt to altered mechanical loading, and that specific combinations of multidirectional loads appear to have a synergistic effect on the remodeling. However, most studies of mechanical stimulation of engineered vascular tissue engineering employ only uniaxial stimulation. Here we present a novel computer-controlled bioreactor and biomechanical testing device designed to precisely and simultaneously control mean and cyclic values of transmural pressure (at rates up to 1 Hz and ranges of 40 mmHg), luminal flow rate, and axial length (or load) applied to gel-derived, scaffold-derived, and self-assembly-derived tissue-engineered blood vessels during culture, while monitoring vessel geometry with a resolution of 6.6 mum. Intermittent monitoring of the extracellular matrix and cells is accomplished on live tissues using multi-photon confocal microscopy under unloaded and loaded conditions at multiple time-points in culture (on the same vessel) to quantify changes in cell and extracellular matrix content and organization. This same device is capable of performing intermittent cylindrical biaxial biomechanical testing at multiple time-points in culture (on the same vessel) to quantify changes in the mechanical behavior during culture. Here we demonstrate the capabilities of this new device on self-assembly-derived and collagen-gel-derived tissue-engineered blood vessels.
Reprogrammable Phononic Metasurfaces (2017)

Phononic metamaterials rely on the presence of resonances in a structured medium to control the propagation of elastic waves. Their response depends on the geometry of their fundamental building blocks. A major challenge in metamaterials design is the realization of basic building blocks that can be tuned dynamically. Here, a metamaterial plate is realized that can be dynamically tuned by harnessing geometric and magnetic nonlinearities in the individual unit cells. The proposed tuning mechanism allows a stiffness variability of the individual unit cells and can control the amplitude of transmitted excitation through the plate over three orders of magnitude. The concepts can be extended to metamaterials at different scales, and they can be applied in a broad range of engineering applications, from seismic shielding at low frequency to ultrasonic cloaking at higher frequency ranges.
Georeferenced Registration of Construction Graphics in Mobile Outdoor Augmented Reality (2007)

This paper describes research that investigated the application of the global positioning system and 3 degree-of-freedom (3-DOF) angular tracking to address the registration problem during interactive visualization of construction graphics in outdoor augmented reality (AR) environments. The global position and the three-dimensional (3D) orientation of a user’s viewpoint are tracked, and this information is reconciled with the known global position and orientation of superimposed computer-aided design (CAD) objects. Based on this computation, the relative translation and axial rotations between the user’s viewpoint and the CAD objects are continually calculated. The relative geometric transformations are then applied to the CAD objects inside a virtual viewing frustum that is coincided with the real world space that is in the user’s view. The result is an augmented outdoor environment where superimposed graphical objects stay fixed to their real world locations as the user navigates. The algorithms are implemented in a software tool called UM-AR-GPS-ROVER that is capable of interactively placing static and dynamic 3D models at any location in outdoor augmented space. The concept and prototype are demonstrated with an example in which scheduled construction activities for the erection of a structural steel frame are graphically simulated in outdoor AR.
Aspects of Free Radical Reactions in Biological Systems: Aging (1980)

The role of free radicals and lipid peroxidation is reviewed with regard to the aging process. Free radicals are produced during mitochondrial respiration, during the autooxidation of a variety of biological molecules and chemicals, during irradiation damage, and are found as environmental pollutants. Free radicals induce lipid peroxidation which results in membrane damage, increased disulfide/sulfhydryl ratios, and accumulation of aging pigments. Superoxide dismutase, glutathione peroxidase, vitamin E, vitamin C, and selenium are of importance with respect to free radical and lipid peroxide quenching. During aging, the levels of vitamin C appear to decline in the human, guinea pig, and the mouse. Synthetic antioxidants, added to the diets of mice, have been noted to extend the lifespan and mean half-survivale times.
Clonal anergy blocks the response to IL-4, as well as the production of IL-2, in dual-producing T helper cell clones (1991)

Abstract In this report we extend the in vitro clonal anergy model to examine the regulation of proliferation in T cells that secrete both IL-2 and IL-4. Newly cloned Ag-specific murine T cells are shown to depend on both IL-2 and IL-4 synthesis for maximal proliferation. Whereas IL-2 responsiveness is constitutive in these cells, IL-4 responsiveness develops only after Ag and APC stimulation. Remarkably, proliferation of these cells to Ag is sensitive to inhibition by clonal anergy, even though IL-4 synthesis remains inducible. Anergy in these cells is associated with an inability to respond to IL-4, in addition to the development of an IL-2 production defect. The results suggest that anergy induction may be capable of preventing the clonal expansion of autoreactive T cells producing both IL-2 and IL-4 in vivo.
Somatic inactivation of the VHL gene in Von Hippel-Lindau disease tumors. (1997)

Von Hippel-Lindau (VHL) disease is a dominantly inherited disorder predisposing to retinal and CNS hemangioblastomas, renal cell carcinoma (RCC), pheochromocytoma, and pancreatic tumors. Interfamilial differences in predisposition to pheochromocytoma reflect allelic heterogeneity such that there is a strong association between missense mutations and risk of pheochromocytoma. We investigated the mechanism of tumorigenesis in VHL disease tumors to determine whether there were differences between tumor types or classes of germ-line mutations. Fifty-three tumors (30 RCCs, 15 hemangioblastomas, 5 pheochromocytomas, and 3 pancreatic tumors) from 33 patients (27 kindreds) with VHL disease were analyzed. Overall, 51% of 45 informative tumors showed loss of heterozygosity (LOH) at the VHL locus. In 11 cases it was possible to distinguish between loss of the wild-type and mutant alleles, and in each case the wild-type allele was lost. LOH was detected in all tumor types and occurred in the presence of both germ-line missense mutations and other types of germline mutation associated with a low risk of pheochromocytoma. Intragenic somatic mutations were detected in three tumors (all hemangioblastomas) and in two of these could be shown to occur in the wild-type allele. This provides the first example of homozygous inactivation of the VHL by small intragenic mutations in this type of tumor. Hypermethylation of the VHL gene was detected in 33% (6/18) of tumors without LOH, including 2 RCCs and 4 hemangioblastomas. Although hypermethylation of the VHL gene has been reported previously in nonfamilial RCC and although methylation of tumor-suppressor genes has been implicated in the pathogenesis of other sporadic cancers, this is the first report of somatic methylation in a familial cancer syndrome.