gebhart/patrepeval huggingface dataset:
Spatial light interference microscopy (SLIM) (2011)

We present spatial light interference microscopy (SLIM) as a new optical microscopy technique, capable of measuring nanoscale structures and dynamics in live cells via interferometry. SLIM combines two classic ideas in light imaging: Zernike's phase contrast microscopy, which renders high contrast intensity images of transparent specimens, and Gabor's holography, where the phase information from the object is recorded. Thus, SLIM reveals the intrinsic contrast of cell structures and, in addition, renders quantitative optical path-length maps across the sample. The resulting topographic accuracy is comparable to that of atomic force microscopy, while the acquisition speed is 1,000 times higher. We illustrate the novel insight into cell dynamics via SLIM by experiments on primary cell cultures from the rat brain. SLIM is implemented as an add-on module to an existing phase contrast microscope, which may prove instrumental in impacting the light microscopy field at a large scale.
In-Ear Heart Rate Monitoring Using a Micro-Optic Reflective Sensor (2007)

Cardiovascular diseases are among the most common causes of death in western industrial nations. It is of great interest of both physician and patient to determine the cardiovascular risk factors early in order to take preventive measures. To assist the recognition of irregularities in a subject's cardiovascular system, we develop an optic 24/7 inear monitoring system (IN-MONIT). The central component is a micro-optic remission/reflection sensor (MORES), which is placed inside the auditory canal. There the pulsation of blood within the capillaries is measured by means of optical absorption. From the resulting photoplethysmographic curves (pulse plethysmogram, PPG), the heart rate, oxygen saturation (SpO2), respiratory rate and higher order moments can be derived. The optical absorption data are processed locally using a microcontroller and the results are transferred wirelessly to a personal digital assistant (PDA) or PC for sophisticated classification. This paper introduces the IN-MONIT system and two algorithms for heart rate determination from ECG or PPG data. The performance of these algorithms was tested using annotated ECG data from the "MIT-BIH Normal Sinus Rhythm Database", synchronously recorded ECG and pulse oximeter data, and data acquired by the MORES sensor.
Partial discharge diagnostics and electrical equipment insulation condition assessment (2005)

Partial discharge (PD) measurement has long been used as a test to evaluate different insulation system designs, and as a quality control test for new equipment. However, in the past 20 years, PD measurement has been widely applied to diagnose the condition of the electrical insulation in operating apparatus such as switchgear, transformers, cables, as well as motor and generator stator windings. Improvements in the capabilities as well the lower cost of sensors, electronics and memory is partly the reason for the increased popularity of PD diagnostics. Another reason has been the development of methods-including the use of ultrawide band detection-to improve the reliability of the PD measurement in the presence of noise. In addition, rapid progress is being made in automated pattern recognition techniques that also helps to suppress noise. This paper reviews the various PD measurement technologies that have been specifically developed to improve PD diagnostic methods, and outlines how they have been implemented for stators, cables, transformers and switchgear. Areas for further research are also presented.
Biophysical mechanisms responsible for pulsed low-level laser excitation of neural tissue (2006)

<b>Background/Objective:</b> The traditional method of stimulating neural activity has been based on electrical methods and remains the gold standard to date despite inherent limitations. We have previously shown a new paradigm to in vivo neural activation based on pulsed infrared light, which provides a contact-free, spatially selective, artifact-free method without incurring tissue damage that may have significant advantages over electrical stimulation in a variety of diagnostic and therapeutic applications. The goal of this study was to investigate the physical mechanism of this phenomenon, which we propose is a photo-thermal effect from transient tissue temperature changes resulting in direct or indirect activation of transmembrane ion channels causing propagation of the action potential. <b>Methods:</b> Rat sciatic nerve preparation was stimulated in vivo with the Holmium:YAG laser (2.12&#956;m), Free Electron Laser (2.1&#956;m), Alexandrite laser (690nm), and the prototype for a solid state commercial laser nerve stimulator built by Aculight (1.87&#956;m) to determine contributions of photobiological responses from laser tissue interactions, including temperature, pressure, electric field, and photochemistry, underlying the biophysical mechanism of stimulation. Single point temperature measurements were made with a microthermocouple adjacent to the excitation site, while an infrared camera was used for 2-D radiometry of the irradiated surface. Displacement from laser-induced pressure waves or thermoelastic expansion was measured using a PS-OCT system. <b>Results:</b> Results exclude a direct photochemical, electric field, or pressure wave effect as the mechanism of optical stimulation. Measurements show relative small contributions from thermoelastic expansion (300 nm) with the laser parameters used for nerve stimulation. The maximum change in tissue temperature is about 9°C (average increase of 3.66 °C) at stimulation threshold radiant exposures. <b>Conclusion:</b> Neural activation with pulsed laser-light occurs by a transient thermally induced mechanism. Future experiments will reveal if this effect is through direct membrane interaction or facilitated through an indirect effect leading to membrane depolarization.
Cyclo-meta-phenylene Revisited: Nickel-Mediated Synthesis, Molecular Structures, and Device Applications (2014)

From a one-pot nickel-mediated Yamamoto-type coupling reaction of m-dibromobenzene, five congeners of [n]cyclo-meta-phenylenes were synthesized and fully characterized. The [n]cyclo-meta-phenylenes possessed a commonly shared arylene unit and intermolecular contacts but varied in packing structures in the crystalline solid state. Columnar assembly of larger congeners yielded nanoporous crystals with carbonaceous walls to capture minor protic or aliphatic solvent molecules. The concise and scalable synthesis allowed exploration of the macrocyclic hydrocarbons as bipolar charge carrier transport materials in organic light-emitting diode devices.
SemEval-2014 Task 1: Evaluation of Compositional Distributional Semantic Models on Full Sentences through Semantic Relatedness and Textual Entailment (2014)

This paper presents the task on the evaluation of Compositional Distributional Semantics Models on full sentences organized for the first time within SemEval-2014. Participation was open to systems based on any approach. Systems were presented with pairs of sentences and were evaluated on their ability to predict human judgments on (i) semantic relatedness and (ii) entailment. The task attracted 21 teams, most of which participated in both subtasks. We received 17 submissions in the relatedness subtask (for a total of 66 runs) and 18 in the entailment subtask (65 runs).
Polymorphic Gene Regulation and Interindividual Variation of UDP-glucuronosyltransferase Activity in Human Small Intestine (2000)

UDP-glucuronosyltransferases (UGTs) convert dietary constituents, drugs, and environmental mutagens to inactive hydrophilic glucuronides. Recent studies have shown that the expression of the UGT1 and UGT2 gene families is regulated in a tissue-specific fashion. Human small intestine represents a major site of resorption of dietary constituents and orally administered drugs and plays an important role in extrahepatic UGT directed metabolism. Expression of 13 UGT1A and UGT2B genes coupled with functional and catalytic analyses were studied using 18 small intestinal and 16 hepatic human tissue samples. Hepatic expression of UGT gene transcripts was without interindividual variation. In contrast, a polymorphic expression pattern of all the UGT genes was demonstrated in duodenal, jejunal, and ileal mucosa, with the exception of UGT1A10. To complement these studies, interindividual expression of UGT proteins and catalytic activities were also demonstrated. Hyodeoxycholic acid glucuronidation, catalyzed primarily by UGT2B4 and UGT2B7, showed a 7-fold interindividual variation in small intestinal duodenal samples, in contrast to limited variation in the presence of 4-methylumbelliferone, a substrate glucuronidated by most UGT1A and UGT2B gene products. Linkage of RNA expression patterns to protein abundance were also made with several mono-specific antibodies to the UGTs. These results are in contrast to a total absence of polymorphic variation in gene expression, protein abundance, and catalytic activity in liver. In addition, the small intestine exhibits considerable catalytic activity toward most of the different classes of substrates accepted for glucuronidation by the UGTs, which is supported by immunofluorescence analysis of UGT1A protein in the mucosal cell layer of the small intestine. Thus, tissue-specific and interindividual polymorphic regulation of UGT1A and UGT2B genes in small intestine is identified and implicated as molecular biological determinant contributing to interindividual prehepatic drug and xenobiotic metabolism in humans.
Shigella flexneri LuxS Quorum-Sensing System Modulates virB Expression but Is Not Essential for Virulence (2001)

Quorum-sensing systems regulate the expression of virulence factors in a wide variety of plant and animal pathogens, including members of the Enterobacteriaceae. Studies of Shigella virulence gene expression have demonstrated that maximal expression of genes encoding the type III secretion system and its substrates and maximal activity of this virulence organelle occur at high cell density. In these studies, we demonstrate that the expression of ipa, mxi, and spa invasion operons is maximal in stationary-phase bacteria and that conditioned media derived from stationary-phase cultures enhance the expression of these loci. In contrast, expression of virB, a transcription factor essential for the expression of invasion loci, peaks in late log phase; accordingly, virB expression is enhanced by a signal(s) present in conditioned media derived from late-log-phase cultures. Autoinducer 2 (AI-2), a quorum signaling molecule active in late log phase, was synthesized by Shigella species and enteroinvasive Escherichia coli and shown to be responsible for the observed peak of virB expression. However, AI-2 does not influence invasion operon expression and is not required for Shigella virulence, as mutants deficient in AI-2 synthesis are fully virulent. The implications of these findings with regard to both virB and invasion operon expression and the evolution of circuitries governing virulence gene expression are discussed.
Seasonality and clinical impact of human parainfluenza viruses (2018)

HPIV-4 presented late summer and early fall annually and was associated with increased severity of illness in hospitalized children.
In defense of Nearest-Neighbor based image classification (2008)

State-of-the-art image classification methods require an intensive learning/training stage (using SVM, Boosting, etc.) In contrast, non-parametric nearest-neighbor (NN) based image classifiers require no training time and have other favorable properties. However, the large performance gap between these two families of approaches rendered NN-based image classifiers useless. We claim that the effectiveness of non-parametric NN-based image classification has been considerably undervalued. We argue that two practices commonly used in image classification methods, have led to the inferior performance of NN-based image classifiers: (i) Quantization of local image descriptors (used to generate "bags-of-words ", codebooks). (ii) Computation of 'image-to-image' distance, instead of 'image-to-class' distance. We propose a trivial NN-based classifier - NBNN, (Naive-Bayes nearest-neighbor), which employs NN- distances in the space of the local image descriptors (and not in the space of images). NBNN computes direct 'image- to-class' distances without descriptor quantization. We further show that under the Naive-Bayes assumption, the theoretically optimal image classifier can be accurately approximated by NBNN. Although NBNN is extremely simple, efficient, and requires no learning/training phase, its performance ranks among the top leading learning-based image classifiers. Empirical comparisons are shown on several challenging databases (Caltech-101 ,Caltech-256 and Graz-01).
Antipsychotic and Antidepressant Drug Use in the Elderly and the Risk of Venous Thromboembolism (2002)

In a large cohort of adults aged 65 years and older, neither antipsychotic or antidepressant drug use was associated with an increased risk of venous thromboembolism, with the exception of a slightly increased risk among those prescribed butyrophenones. Further data are required before use of these psychoactive drugs can be considered a risk factor for venous thromboembolism.
Dynamic Host Configuration Protocol (1993)

The Dynamic Host Configuration Protocol (DHCP) provides a framework for passing configuration information to hosts on a TCP/IP network. DHCP is based on the Bootstrap Protocol (BOOTP) DHCP captures the behavior of BOOTP relay agents
<title>Cartilage segmentation of 3D MRI scans of the osteoarthritic knee combining user knowledge and active contours</title> (2000)

A technique for segmentation of articular cartilage from 3D MRI scans of the knee has been developed. It overcomes the limitations of the conventionally used region growing techniques, which are prone to inter- and intra-observer variability, and which can require much manual intervention. We describe a hybrid segmentation method combining expert knowledge with directionally oriented Canny filters, cost functions and cubic splines. After manual initialization, the technique utilized 3 cost functions which aided automated detection of cartilage and its boundaries. Using the sign of the edge strength, and the local direction of the boundary, this technique is more reliable than conventional 'snakes,' and the user had little control over smoothness of boundaries. This means that the automatically detected boundary can conform to the true shape of the real boundary, also allowing reliable detection of subtle local lesions on the normally smooth cartilage surface. Manual corrections, with possible re-optimization were sometimes needed. When compared to the conventionally used region growing techniques, this newly described technique measured local cartilage volume with 3 times better reproducibility, and involved two thirds less human interaction. Combined with the use of 3D image registration, the new technique should also permit unbiased segmentation of followup scans by automated initialization from a baseline segmentation of an earlier scan of the same patient.
Preparation, purification, and analysis of alkylated cyclodextrins (1992)

Abstract Methods of alkylation of α‐, β‐ and γ‐cyclodextrins have been optimized with regard to the parameters of reaction, degree of alkylation and yields. The analysis of the reaction mixtures and of the isolated single species has been performed by high temperature GC and HPLC. The phase systems of the preferably applied HPLC have been carefully adjusted by variation of both the stationary and mobile phases to the very different hydrophobicities of the various alkylated CD species which have been synthesized. Several partially or fully alkylated CD species were isolated from preparative scale HPLC separations in high purity.
Impaired Firing and Cell-Specific Compensation in Neurons Lacking Nav1.6 Sodium Channels (2006)

The ability of neurons to fire precise patterns of action potentials is critical for encoding inputs and efficiently driving target neurons. At the axon initial segment and nodes of Ranvier, where nerve impulses are generated and propagated, a high density of Na(v)1.2 sodium channels is developmentally replaced by Na(v)1.6 channels. In retinal ganglion cells (GCs), this isoform switch coincides with the developmental transition from single spikes to repetitive firing. Also, Na(v)1.6 channels are required for repetitive spiking in cerebellar Purkinje neurons. These previous observations suggest that the developmental appearance of Na(v)1.6 underlies the transition to repetitive spiking in GCs. To test this possibility, we recorded from GCs of med (Na(v)1.6-null) and wild-type mice during postnatal development. By postnatal day 18, when the switch to Na(v)1.6 at GC initial segments is normally complete, the maximal sustained and instantaneous firing rates were lower in med than in wild-type GCs, demonstrating that Na(v)1.6 channels are necessary to attain physiologically relevant firing frequencies in GCs. However, the firing impairment was milder than that reported previously in med Purkinje neurons, which prompted us to look for differences in compensatory sodium channel expression. Both Na(v)1.2 and Na(v)1.1 channels accumulated at initial segments and nodes of med GCs, sites normally occupied by Na(v)1.6. In med Purkinje cells, only Na(v)1.1 channels were found at initial segments, whereas in other brain regions, only Na(v)1.2 was detected at med initial segments and nodes. Thus, compensatory mechanisms in channel isoform distribution are cell specific, which likely results in different firing properties.
CRT colorimetry. part I: Theory and practice (1993)

Abstract The relationship was derived for computer‐controlled color CRT displays between spectral radiant exitance emitted and digital counts. The derivation was historical and could be traced to pioneering work in photographic sensitometry, vacuum tube physics, and broadcast television. By performing radiometric measurements relative to a display's maximum exitance, the model simplified to a two‐stage model. The first stage was a nonlinear transformation relating normalized digital‐to‐analog converter values to device‐dependent monitor tristimulus values using model parameters of gain, offset, and γ. The second stage was a linear transformation where the device‐dependent monitor tristimulus values were transformed to device‐independent CIE tristimulus values. By using the model, colorimetric characterization accuracy of better than 0.5 CIELAB color‐difference units for 125 colors sampling the display color gamut was achieved by measuring the CIE tristimulus values of only eight colors. The model had equivalent performance to methods using extensive measurements and table lookup. © 1993 John Wiley &amp; Sons, Inc.
Use of the porous balloon in porcine coronary arteries: rationale for low pressure and volume delivery (1993)

Using agents administered systemically, attempts to control the restenotic myoproliferative response associated with angioplasty have been unsuccessful. The porous balloon has the advantage of achieving high local concentrations by directly infusing agents into the arterial wall. The purpose of this study is to identify any acute and chronic morphological changes in swine coronary arteries infused with normal saline through the porous balloon at different driving pressures. In order to establish the safety of local arterial wall infusion through the porous balloon, swine underwent porous balloon infusion of 3, 6, or 10 ml of saline at 5 atmospheres, or infusion of 3 ml of normal saline delivered at either 2, 5, or 10 atmospheres of pressure into the normal left anterior descending and left circumflex arteries. To assess the histopathologic alterations induced by the porous balloon, sized 1.1 to 1 with respect to the artery, animals were sacrificed either immediately after porous balloon infusion or 14 ays later. Acute vessels were evaluated for the presence of medial injury, disruption and/or dissection, whereas chronic vessels underwent morphometric analysis measuring the residual luminal area (Lumen area/Intimal area+Lumen area) and the maximal intimal thickness. Adequate adventitial penetration was confirmed by infusing as little as 2-3 ml of methylene blue at 2 atmospheres of pressure. Infusion of 3 ml of normal saline at 2 atmospheres resulted in minor focal medial edema and disorganization, detected both acutely and 14 days after porous balloon infusion. At delivery pressures of 5 or 10 atmospheres, proportionally more acute injury was noted and measurable neointimal lesions were observed 2 weeks after infusion.(ABSTRACT TRUNCATED AT 250 WORDS)
Distribution of paraoxon hydrolytic activity in the serum of patients after myocardial infarction. (1986)

The activity of paraoxonase in serum was found to be bimodally distributed, both in a control group and in a group of patients who had suffered myocardial infarction. Activity in the myocardial infarct group was significantly lower than in the control group. Low paraoxonase activity in serum may provide an indication of susceptibility to the development of coronary heart disease.
Opposite Spectrum of Activity of Canonical Wnt Signaling in the Osteogenic Context of Undifferentiated and Differentiated Mesenchymal Cells: Implications for Tissue Engineering (2010)

To delineate the competence window in which canonical wingless (Wnt)-signaling can either inhibit or promote osteogenic differentiation, we have analyzed cells with different status, specifically undifferentiated mesenchymal cells, such as adipose-derived stem cells and embryonic calvarial mesenchymal cells, and differentiated mesenchymal cells such as juvenile immature calvarial osteoblasts and adult calvarial osteoblasts. Our analysis indicated that undifferentiated mesenchymal cells and juvenile calvarial osteoblasts are endowed with higher levels of endogenous canonical Wnt signaling compared to fully differentiated adult calvarial osteoblasts, and that different levels of activation inversely correlated with expression levels of several Wnt antagonists. We have observed that activation of canonical Wnt signaling may elicit opposite biological activity in the context of osteogenic differentiation depending on the status of cell, the threshold levels of its activation, and Wnt ligands concentration. The results presented in this study indicate that treatment with Wnt3 and/or expression of constitutively activated &#x03B2;-catenin inhibits osteogenic differentiation of undifferentiated mesenchymal cells, whereas expression of dominant negative transcription factor 4 (Tcf4) and/or secreted frizzled related protein 1 treatment enhances their osteogenic differentiation. Wnt3a treatment also inhibits osteogenesis in juvenile calvarial osteoblasts in a dose-dependent fashion. Conversely, Wnt3a treatment strongly induces osteogenesis in mature calvarial osteoblasts in a dose-dependent manner. Importantly, in vitro data correlated with in vivo results showing that Wnt3a treatment of calvarial defects, created in juvenile mice, promotes calvarial healing and bone regeneration only at low doses, whereas high doses of Wnt3a impairs tissue regeneration. In contrast, high doses of Wnt3a enhance bony tissue regeneration and calvarial healing in adult mice. Therefore, the knowledge of both endogenous activity of canonical Wnt signaling and appropriate concentrations of Wnt3a treatment may lead to significant improvement for bony tissue engineering, as well as for the efficient implement of adipose-derived stem cells in bone regeneration. Indeed, this study has important potential implications for tissue engineering, specifically for repair of juvenile bone defects.