gebhart/patrepeval huggingface dataset:
Performance Evaluation of Hop-Aware Buffer Management Scheme in Multihop Ad Hoc Networks (2008)

End-to-end delay and loss probability are two important parameters for evaluating the performance of multihop ad hoc networks. One of the main reasons for increasing the value of those parameters; is the buffer management scheme in the intermediate nodes. The number of hops that the packet traversed is not taken into account in most existing buffer management schemes. Dropping a packet which traversed a large number of hops; results in more retransmission overhead and therefore more congestion in networks than dropping a packet with a small number of hops. In this paper, we propose a buffer management scheme named hop-aware buffering (HAB). HAB is based on virtual partitioning of the buffer at each node according to the number of hops that the packets traversed from source to relaying node. The partitions are correlated and dynamically changed according to the traffic load. An analytical model based on a 4-dimensional Markov chain and simulation is carried out. The results show that HAB outperforms droptail in terms of end-to-end delay and loss probability.
Manganese Oxide Mesoporous Structures: Mixed-Valent Semiconducting Catalysts (1997)

Hexagonal and cubic phases of manganese oxide mesoporous structures (MOMS) have been prepared by means of the oxidation of Mn(OH) 2 . The hexagonal MOMS materials form a hexagonal array of pores with an open porous structure, thick walls (1.7 nanometers), and exceptional thermal stability (1000°C). The walls of the mesopores are composed of microcrystallites of dense phases of Mn 2 O 3 and Mn 3 O 4 , with MnO 6 octahedra as the primary building blocks. The calcined hexagonal MOMS have an electrical conductivity of 8.13 × 10 −6 per ohm·centimeter, an average manganese oxidation state of 3.55, and a band gap of 2.46 electron volts. Catalytic oxidations of cyclohexane and n -hexane in aqueous solutions in a batch reactor show conversions of ∼10 and ∼8 percent, respectively. Characterization and catalytic data suggest that MOMS systems show significant enhancement in thermal stability with respect to octahedral molecular sieve materials.
Tissue expression of MMP-9, TIMP-1, RECK, and miR338-3p in prostate gland: can it predict cancer? (2021)

Prostate cancer is the most frequent malignancy affecting men worldwide. Due to the low sensitivity and specificity of the prostate-specific antigen test and the digital rectal exam as screening modalities, several alternatives are being studied. This study aimed to evaluate the application of MMP-9 and its regulators (TIMP-1, RECK, and miR-338-3p) as diagnostic and prognostic indicators of prostate cancer. A total of 134 randomly selected patients under investigation for prostate cancer submitted to a transrectal ultrasound-guided prostate biopsy were enrolled in the study; of these, 61 were positive for the disease (cases), and 73 were negative (control group). The tissue samples were further analyzed by gene and miR-338-3p expression analysis using qRT-PCR (one randomly selected fragment of each patient). Approximately 58% of the patients with prostate cancer presented MMP9 upregulation, while 73%, 65%, and 69% downregulated IMP-1, RECK, and miR-338-3p, respectively. MiR-338-3p was expressed at lower levels in patients with PSA concentrations exceeding 20 ng/mL (p=0.045) and abnormal DRE (p=0.006), while the RECK was more expressed in patients with abnormal DRE (p=0.01). We found that most patients with prostate cancer overexpressed MMP-9; on the other hand, most of them underexpressed TIMP-1, RECK, and miR-338-3p. MiR-338-3p presented as a possible predictor of poor prognosis. Further studies are warranted to evaluate these biomarkers as prognosis factors better.
Material potential and scalability challenges of germanium CMOS (2011)

This paper overviews the present status of Ge MOSFET technology, particularly focusing on n-FETs in terms of materials science of GeO <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">2</sub> /Ge gate stacks and device physics of inversion layer mobility, and then discusses future prospects and fundamental challenges for further miniaturization from the viewpoint of Ge/high-k gate stacks and ET-GeOI MOSFETs.
Nitric Oxide and the Surgical Patient (1997)

It has been a decade since the elucidation of the key components ofl-arginine to the nitric oxide (NO) pathway.<sup>1-3</sup>Knowledge in this field has expanded at a dizzying pace such that it is clear that NO participates in some way in essentially every physiologic process. Just as important has been the characterization of roles of NO in the pathophysiological features of many disease processes. New findings appear in the scientific literature at a rate that overwhelms even the most dedicated NO researchers. The universal interest in the biomedical importance of this molecule recently became evident with the creation of the Nitric Oxide Society along with its peer-reviewed publication,<i>Nitric Oxide: Biology and Chemistry.</i>With this tremendous investment of research resources, the clinician cannot help but wonder, "What have we learned that is clinically relevant?" and "Where are the therapeutic dividends?" This article will provide some of the key observations made about NO relevant to the biological responses of surgical patients and discuss some of the therapies based on NO research on the horizon. First, we will summarize basic NO biochemistry.
Integrative Imaging Informatics for Cancer Research: Workflow Automation for Neuro-Oncology (I3CR-WANO) (2023)

This streamlined framework automatically curated, processed, and segmented raw MRI data of patients with varying grades of gliomas, enabling the curation of large-scale neuro-oncology data sets and demonstrating high potential for integration as an assistive tool in clinical practice.
Nanoparticle Enhanced Electrochemical Detection of Multiple BW Agents on Patterned Microelectrode Arrays. (2007)

Abstract not provided.
Localized surface plasmon resonance based optical biosensor using surface modified nanoparticle layer for label-free monitoring of antigen–antibody reaction (2005)

In recent years, label-free biosensors not requiring external modifications have been receiving intense attention. A label-free optical biosensor, which retains many of the desirable features of conventional surface plasmon resonance (SPR) reflectometry, namely, the ability to monitor the kinetics of biomolecular interactions in real-time without a label has been developed with several important advantages: the biosensor device is easy to fabricate, and simple to implement, requiring only an UV–Vis spectrophotometer or flatbed scanner. Importantly, the label-free optical biosensor can be easily multiplexed to enable high-throughput monitoring of biomolecular interactions in an arraybased format. In this research,the development of a localized surface plasmon resonance (LSPR)-based label-free optical biosensor using a surface modified nanoparticle layer is aimed. This optical detection method promises to offer a massively parallel detection capability in a highly miniaturized package. The two-dimensional nanoparticle layer was formed by the surface modified silica nanoparticles. The optical properties and surface analysis of nanoparticle layer substrate were characterized through transmissionmeasurements and atomic force microscopy (AFM). Simultaneously, the nanoparticle layer substrate was applied to the optical LSPR-based biosensor for label-free monitoring of the antigen–antibody reaction. The anti-fibrinogen antibody wasimmobilized onto the nanoparticle layer substrate surface. Different concentrations of fibrinogen were introduced to the anti-fibrinogen antibody immobilized nanoparticle layer substrate surface, and the change in the absorption spectrum, caused by the antigen–antibody reaction, was observed. By using this anti-fibrinogen antibody immobilized nanoparticle layer substrate; the detection limit of this optical LSPR-based biosensor was 10 ng/ml.
Facies analysis: Integration of core and log data using a neural network as input for reservoir modeling in Betty Field, Malaysia (2004)

A novel approach to perform multiwell facies analysis was undertaken in the clastic reservoirs of Betty Field, Malaysia. The objective was to integrate the lithofacies information from core with petrophysical evaluation through the use of a neural network system. This provided a facies database that was used to estimate lithofacies in adjacent uncored wells at the 3D facies modeling stage.
Identification of pentahydroxy bile alcohols in cerebrotendinous xanthomatosis: characterization of 5β-cholestane-3α, 7α, 12α, 24xi, 25-pentol and 5β-cholestane-3α, 7α, 12α, 23xi, 25-pentol (1975)

This paper describes studies dealing with the nature of the C27 pentahydroxy bile alcohols present in the bile and feces of two patients with cerebrotendinous xanthomatosis (CTX). The presence of a bile alcohol having the structure 5beta-cholestane-3alpha,7alpha,12alpha,24alpha,25-pentol was confirmed by separation of the two 24-hydroxy epimers of 5beta-cholestane-3alpha,7alpha,12alpha,24,25-pentol and characterization of the dpimers by gas-liquid chromatography and infrared and mass spectrometry. Tentative assignment of the 24alpha and 24beta configuration was made on the basis of molecular rotation differences. A second major bile alcohol excreted by the CTX subjects was 5beta-cholestane-3alpha,7alpha,12alpha,23xi,25-pentol. Its structure was determined by infrared spectrometry, proton magnetic resonance spectrometry, and mass spectrometry because a reference compound was not available.
Differential miRNAs in acute spontaneous coronary artery dissection: Pathophysiological insights from a potential biomarker (2021)

Spanish Ministry of Economy and Competitiveness (MINECO): Plan Nacional de Salud SAF2017-82886-R, Centro de Investigación Biomédica en Red de Enfermedades Cardiovasculares (CIBERCV). Fundación BBVA a equipos de Investigación Científica 2018 and from Caixa Banking Foundation under the project code HR17-00016 to F.S.M. Instituto de Salud Carlos III (AES 2019): PI19/00565 to F.R, PI19/00545 to P.M. CAM (S2017/BMD-3671-INFLAMUNE-CM) from Comunidad de Madrid to FSM and PM. The UK SCAD study was supported by BeatSCAD, the British Heart Foundation (BHF) PG/13/96/30608 the NIHR rare disease translational collaboration and the Leicester NIHR Biomedical Research Centre.
Modern Quantum Theory of Color Vision and Statistical Colorimetry, Their Role and Influence on Changing Fundamental Assumptions of the Color Theory and Color Imaging Practice (1993)

There are presented the cardinal statements and features of a new, quantometric, statistical version of the color vision theory and colorimetry (CVT&amp;C) which is alternative to the classic wave Young-Helmholtz-Maxwell's version of the CVT&amp;C. The foundations of the proposed new version of the CVT&amp;C are the quantum theory of the light radiation and the quantometric methods of the photon-by-photon (ph.-by-ph.) registration (count) of the light radiation quanta in the energydispersive spectrometry regime. The main attention is concentrated on the physical and statistical aspects of the quantometric version of the CVT&amp;C and its relation to the classic wave version of the CVT&amp;C.
Automatic localization and delineation of collimation fields in digital and film-based radiographs (2002)

Collimation field detection is an important pre-processing step for automatic image analysis of radiographs. However, most approaches are restricted to a small set of form archetypes or presuppose the presence of a shutter. Hence, existing methods are not applicable to large collections of radiographs from various modalities, such as obtained in the field of content-based image retrieval in medical applications. Based on analytical evaluation, the approach of WIEMKER et al. (Procs SPIE 2000; 3979:1555-1565) was selected, modified in order to reduce false positive detection, and evaluated on a large set of 4,000 radiographs (763 containing shutter edges) taken from daily routine including any kind of projective X-ray examinations. Eight subsets (each of 500 images) were compiled randomly. A set of 500 images was used to optimize the parameters and evaluated using the remaining 3,500 images. This procedure was repeated for all eight combinations. Using the initial approach, the specificity is 96.4% with a poor sensitivity of 44.1% resulting in an overall precision of 86.7%. All figures increase up to 98.5%, 55.6%, and 89.5%, respectively, if the algorithm also minimizes the variation of radiation density values outside the detected shutter area. In terms of sensitivity and precision, the results of optimization vs. evaluation for the same combination and of evaluation vs. evaluation for different combinations differed up to 13 and 9 percentage points, respectively. This indicates that still an insufficient number of images is used to allow complete generalization of the results.
Snoring Predicts Hyperactivity Four Years Later (2005)

This 4-year prospective cohort study shows that snoring and other symptoms of sleep-disordered breathing are strong risk factors for future emergence or exacerbation of hyperactive behavior. These findings support the hypothesis that untreated childhood sleep-disordered breathing contributes to development of hyperactivity.
Modeling of piezoelectric multilayer ceramics using finite element analysis (1997)

For medical ultrasound imaging, 2-D array transducers have greater versatility than linear arrays. Unfortunately, the tiny array elements in a 2-D array have poor signal-to-noise ratio (SNR). We have previously shown that SNR is increased in 2-D array transducers made from piezoelectric multilayer ceramics. Conventional one-dimensional models provide accurate results when comparing multilayer ceramic performance relative to single layer transducers. However, these models are not accurate when comparing simulations directly to measurements. Because multilayer ceramics have a complex structure, a 3-D model, such as finite element analysis, is needed for accurate simulations. We modeled four arrays that were previously fabricated: a single layer and multilayer 1 MHz, 2-D array element, and a single layer and multilayer 2.25 MHz, 1.5-D array element that can focus and steer in azimuth but only steer in the elevation dimension. We compared the simulated and measured impedance plots for each transducer. The finite element analysis plots accurately predicted the impedance for each vibration mode. On the other hand, the one dimensional KLM transmission line model could simulate only the thickness mode vibrations and the results were inaccurate compared to measurements. We also simulated the transmit output pressure for the 2.25 MHz arrays and compared the results to measurements. The simulated pressure vs. time plots and their spectra were accurate when compared to measurements. Finally, we obtained a series of images that show the impulse response vibrations for the 2.25 MHz, arrays. These animations show the vibration modes in the complex multilayer ceramic structure. Measurements were not available to confirm the animations. Our results show that finite element analysis in three dimensions is a valuable tool to predict the performance of multi-layer transducers.
A Comparison of Impedance and Electromyogram Measurements in Detecting the Presence of Pedicle Wall Breakthrough (1998)

Electrically elicited electromyograms were more sensitive in detecting pedicle wall breakthrough than were impedance measurements. This may be because of the inability to ascribe absolute impedance values to human pedicle bone caused by the wide variability in bone quality.
Ontology mapping based on concept classification (2009)

Ontology mapping is a crucial task for achieving large scale semantic inter-operation of heterogeneous information sources. Conventional mapping solutions mainly focus on the mapping of a pair of ontologies. While such approaches are effective in creating one-to-one ontology mappings, they are less efficient when dealing with the many-to-many ontology mapping scenarios. To cope with the complexity issue faced by pair-wise mapping solutions, we propose a many-to-many ontology mapping approach. By treating ontology mapping as a concept classification problem, we aim to reduce the number of concept comparisons involved in many-to-many ontology mapping. A preliminary evaluation of performance was also carried out, and results show that the proposed mapping solution requires less concept comparison cycles for many-to-many ontology mapping.
A Lorentz-Force Actuated Autoloading Needle-free Injector (2006)

The advantages of delivering injections via needle-free methods are numerous. However, conventional methods for needle-free injection lack sufficient control over depth of penetration and shape of injection. Thus, a needle-free injector was designed, constructed, and tested, using a controllable linear Lorentz-force actuator. This actuator allows rapid control of the injection pressure during injections. Using this device, precise control over delivery parameters can be achieved. The injector design was tested for repeatability and evaluated for depth control using acrylamide gel and dye.
Biosynthesis of Ribosomal RNA in Nucleoli Regulates Pluripotency and Differentiation Ability of Pluripotent Stem Cells (2014)

Pluripotent stem cells have been shown to have unique nuclear properties, for example, hyperdynamic chromatin and large, condensed nucleoli. However, the contribution of the latter unique nucleolar character to pluripotency has not been well understood. Here, we show that fibrillarin (FBL), a critical methyltransferase for ribosomal RNA (rRNA) processing in nucleoli, is one of the proteins highly expressed in pluripotent embryonic stem (ES) cells. Stable expression of FBL in ES cells prolonged the pluripotent state of mouse ES cells cultured in the absence of leukemia inhibitory factor (LIF). Analyses using deletion mutants and a point mutant revealed that the methyltransferase activity of FBL regulates stem cell pluripotency. Knockdown of this gene led to significant delays in rRNA processing, growth inhibition, and apoptosis in mouse ES cells. Interestingly, both partial knockdown of FBL and treatment with actinomycin D, an inhibitor of rRNA synthesis, induced the expression of differentiation markers in the presence of LIF and promoted stem cell differentiation into neuronal lineages. Moreover, we identified p53 signaling as the regulatory pathway for pluripotency and differentiation of ES cells. These results suggest that proper activity of rRNA production in nucleoli is a novel factor for the regulation of pluripotency and differentiation ability of ES cells.
Virtual Pharmacist: A Platform for Pharmacogenomics (2015)

We present Virtual Pharmacist, a web-based platform that takes common types of high-throughput data, namely microarray SNP genotyping data, FASTQ and Variant Call Format (VCF) files as inputs, and reports potential drug responses in terms of efficacy, dosage and toxicity at one glance. Batch submission facilitates multivariate analysis or data mining of targeted groups. Individual analysis consists of a report that is readily comprehensible to patients and practioners who have basic knowledge in pharmacology, a table that summarizes variants and potential affected drug response according to the US Food and Drug Administration pharmacogenomic biomarker labeled drug list and PharmGKB, and visualization of a gene-drug-target network. Group analysis provides the distribution of the variants and potential affected drug response of a target group, a sample-gene variant count table, and a sample-drug count table. Our analysis of genomes from the 1000 Genome Project underlines the potentially differential drug responses among different human populations. Even within the same population, the findings from Watson's genome highlight the importance of personalized medicine. Virtual Pharmacist can be accessed freely at http://www.sustc-genome.org.cn/vp or installed as a local web server. The codes and documentation are available at the GitHub repository (https://github.com/VirtualPharmacist/vp). Administrators can download the source codes to customize access settings for further development.
Probiotic potential of a BSH positive, high GABA producing strain, Lactobacillus brevis FEM 1874, isolated from traditional “wild” Alpine cheese (2014)

Probiotics appear to play a role in brain development and function through the gut: brain axis. Gamma-aminobutyric acid (GABA), a major inhibitory neurotransmitter, also works in the periphery through immuno-modulation and regulating adipocyte function. Importantly, GABA is produced in high amounts be certain lactobacilli. In Lactobacillus brevis ATCC 367, GABA production depends on the activity of two genes gadA and gadB, as well the presence of an antiporter gadC. gadA and gadC are expressed as an operon, whereas gadR represents a transcriptional regulator. We isolated Lactobacillus brevis FEM 1874 from a traditional “wild” fermented Alpine cheese and studied its putative probiotic traits. This novel strain is bile salt hydrolase (BSH) positive, carries gad genes and is able to produce high levels of GABA in pure culture compared to over 100 other local cheese isolates. We studied GABA production under different conditions by modifying pH and L-glutamate concentrations, as well as assessing the strains survival and ability to produce GABA within the human gut microbiota using anaerobic, pH controlled faecal batch cultures. L. brevis FEM 1874 growth on different prebiotic substrates was also measured as was its ability to survive upper gut acid and bile challenge. L. brevis FEM 1874 appears to be a strain with promising probiotic traits and may prove an important adjuvant in production of functional dairy products. However, further investigations are needed to assess whether this strain produces GABA within the gastrointestinal tract and how this may impact on host immune system and possibly brain function
Probing the Phosphoproteome of HeLa Cells Using Nanocast Metal Oxide Microspheres for Phosphopeptide Enrichment (2010)

Metal oxide affinity chromatography (MOAC) has become a prominent method to enrich phosphopeptides prior to their analysis by liquid chromatography-mass spectrometry. To overcome limitations in material design, we have previously reported the use of nanocasting as a means to generate metal oxide spheres with tailored properties. Here, we report on the application of two oxides, tin dioxide (stannia) and titanium dioxide (titania), for the analysis of the HeLa phosphoproteome. In combination with nanoflow LC-MS/MS analysis on a linear ion trap-Fourier transform ion cyclotron resonance instrument, we identified 619 phosphopeptides using the new stannia material, and 896 phosphopeptides using titania prepared in house. We also compared the newly developed materials to commercial titania material using an established enrichment protocol. Both titania materials yielded a comparable total number of phosphopeptides, but the overlap of the two data sets was less than one-third. Although fewer peptides were identified using stannia, the complementarity of SnO(2)-based MOAC could be shown as more than 140 phosphopeptides were exclusively identified by this material.
Four Cyclodipeptides, Asnovolenins A-B and Asnovozines A-B, from Aspergillus novofumigatus (2018)

Four new cyclodipeptides, asnovolenins A (1) and B (2), and asnovozines A (3) and B (4), were isolated from the fungus Aspergillus novofumigatus CBS 117520.The structures of 1-4 were determined by the detailed analysis of mainly 1D-and 2D-NMR and MS data.Compounds 1 and 2 are composed of epi-aszonalenin (5) and dihydroterrein (6), and they are 2'-epimers of each other.Compounds 3 and 4 consist of D-alanine and tryptophan attached to a 3-methyl-1-butene group.The stereochemistry of 1 and 2 was determined from ROESY spectra and the exciton chirality method from CD spectra, and that of 3 and 4 was determined from NOE or NOESY spectra using the modified Marfey's method.