gebhart/patrepeval huggingface dataset:
Mycobacterium tuberculosis Vitamin K Epoxide Reductase Homologue Supports Vitamin K–Dependent Carboxylation in Mammalian Cells (2020)

Aims: Vitamin K epoxide reductase complex, subunit 1 (VKORC1) is a critical participant in the production of active forms of reduced vitamin K and is required for modification of vitamin K–dependent proteins. Homologues of VKORC1 (VKORH) exist throughout evolution, but in bacteria they appear to function in oxidative protein folding as well as quinone reduction. In the current study we explore two questions: Do VKORHs function in the mammalian vitamin K cycle? Is the pair of loop cysteines—C43 and C51 in human VKORC1—conserved in all VKORC1s, essential for the activity of vitamin K epoxide reduction? Results: We used our recently developed cell-based assay to compare the function of VKORHs to that of human VKORC1 in mammalian cells. We identified for the first time a VKORH (from Mycobacterium tuberculosis [Mt-VKORH]) that can function in the mammalian vitamin K cycle with vitamin K epoxide or vitamin K as substrate. Consistent with our previous in vitro results, the loop cysteines of human VKORC1 are not essential for its activity in vivo. Moreover, the corresponding loop cysteines of Mt-VKORH (C57 and C65), which are essential for its activity in disulfide bond formation during protein folding in Escherichia coli, are not required in the mammalian vitamin K cycle. Innovation and Conclusions: Our results indicate that VKORC1 in eukaryotes and Mt-VKORH in bacteria, that is, in their respective native environments, employ apparently different mechanisms for electron transfer. However, when Mt-VKORH is in the mammalian cell system, it employs a mechanism similar to that of VKORC1. Antioxid. Redox Signal. 16, 329–338.
EGFR and RB1 as Dual Biomarkers in HPV-Negative Head and Neck Cancer (2016)

Clinical decision making for human papillomavirus (HPV)-negative head and neck squamous cell carcinoma (HNSCC) is predominantly guided by disease stage and anatomic location, with few validated biomarkers. The epidermal growth factor receptor (EGFR) is an important therapeutic target, but its value in guiding therapeutic decision making remains ambiguous. We integrated analysis of clinically annotated tissue microarrays with analysis of data available through the TCGA, to investigate the idea that expression signatures involving EGFR, proteins regulating EGFR function, and core cell-cycle modulators might serve as prognostic or drug response-predictive biomarkers. This work suggests that consideration of the expression of NSDHL and proteins that regulate EGFR recycling in combination with EGFR provides a useful prognostic biomarker set. In addition, inactivation of the tumor suppressor retinoblastoma 1 (RB1), reflected by CCND1/CDK6-inactivating phosphorylation of RB1 at T356, inversely correlated with expression of EGFR in patient HNSCC samples. Moreover, stratification of cases with high EGFR by expression levels of CCND1, CDK6, or the CCND1/CDK6-regulatory protein p16 (CDKN2A) identified groups with significant survival differences. To further explore the relationship between EGFR and RB1-associated cell-cycle activity, we evaluated simultaneous inhibition of RB1 phosphorylation with the CDK4/6 inhibitor palbociclib and of EGFR activity with lapatinib or afatinib. These drug combinations had synergistic inhibitory effects on the proliferation of HNSCC cells and strikingly limited ERK1/2 phosphorylation in contrast to either agent used alone. In summary, combinations of CDK and EGFR inhibitors may be particularly useful in EGFR and p<sup>T356</sup>RB1-expressing or CCND1/CDK6-overexpressing HPV-negative HNSCC. Mol Cancer Ther; 15(10); 2486-97. ©2016 AACR.
How to select patients and timing for rectal indomethacin to prevent post-ERCP pancreatitis: a systematic review and meta-analysis (2017)

This meta-analysis indicated that prophylactic rectal indomethacin is not suitable for all patients undergoing ERCP but it is safe and effective to prevent PEP in high-risk patients. In addition, rectal indomethacin administration before ERCP is superior to its administration after ERCP for the prevention of PEP.
Utilizing the genomically adjusted radiation dose (GARD) to personalize adjuvant radiotherapy in triple negative breast cancer management (2019)

GARD is associated with local control following whole breast or post-mastectomy radiotherapy (RT) in TN patients. By modeling RT dose effect with GARD, we demonstrate that no single dose is optimal for all patients and propose the first dose range to optimize RT at an individual patient level in TNBC.
Decomposition of a Welded Part by Iterative Loop Generation Based on Multiple Feature Recognition. (1996)

素材の組合せから溶接部品を設計する問題を逆に溶接部品から素材への形状分割問題として考えて, 計算機で支援する方法を提案する.そのため, 面接続特徴と面接触特徴を各々定義して, 溶接部品の分割前後の形状を多重特徴で認識する.面接続特徴は溶接部品の凹稜線グラフから認識され, 面接触特徴は分割される二つの素材形状から認識される.認識された多重特徴に基づいて溶接部品の形状分割を支援する.本研究では, 元の溶接形状に対して分割する方法より, 元の形状と分割された後の形状を実時間で比較しながら溶接部品を設計することを目的とした.同一形状に対しても, 溶接で製作するために形状を分割する時, その分割方向によって, 製作形状と工程計画などが異なるが, 多重特徴認識によってこれらの作業も支援できると思われる.また, 形状分割作業をユーザと計算機との対話形式で実施することによって, 溶接設計時の設計生産性の向上が期待される.今後は, 認識された面接続特徴と面接触特徴に基づいて, 分割された形状の溶接製作形状を自動生成するルールベースシステムを開発する予定である.
Effect of low frequency electromagnetic fields on A<sub>2A</sub> adenosine receptors in human neutrophils (2002)

The present study describes the effect of low frequency, low energy, pulsing electromagnetic fields (PEMFs) on A2A adenosine receptors in human neutrophils. Saturation experiments performed using a high affinity adenosine antagonist [3H]-ZM 241385 revealed a single class of binding sites in control and in PEMF-treated human neutrophils with similar affinity (KD=1.05+/-0.10 and 1.08+/-0.12 nM, respectively). Furthermore, after 1 h of exposure to PEMFs the receptor density was statistically increased (P<0.01) (Bmax =126+/-10 and 215+/-15 fmol mg-1 protein, respectively). The effect of PEMFs was specific to the A2A adenosine receptors. This effect was also intensity, time and temperature dependent. In the adenylyl cyclase assays the A2A receptor agonists, HE-NECA and NECA, increased cyclic AMP accumulation in untreated human neutrophils with an EC50 value of 43 (40 - 47) and 255 (228 - 284) nM, respectively. The capability of HE-NECA and NECA to stimulate cyclic AMP levels in human neutrophils was increased (P<0.01) after exposure to PEMFs with an EC50 value of 10(8 - 13) and 61(52 - 71) nM, respectively. In the superoxide anion (O2-) production assays HE-NECA and NECA inhibited the generation of O2- in untreated human neutrophils, with an EC50 value of 3.6(3.1 - 4.2) and of 23(20 - 27) nM, respectively. Moreover, in PEMF-treated human neutrophils, the same compounds show an EC50 value of 1.6(1.2 - 2.1) and of 6.0(4.7 - 7.5) nM respectively. These results indicate the presence of significant alterations in the expression and in the functionality of adenosine A2A receptors in human neutrophils treated with PEMFs.
One Size Does Not Fit All: Querying Web Polystores (2019)

Data retrieval systems are facing a paradigm shift due to the proliferation of specialized data storage engines (SQL, NoSQL, Column Stores, MapReduce, Data Stream, and Graph) supported by varied data models (CSV, JSON, RDB, RDF, and XML). One immediate consequence of this paradigm shift results into data bottleneck over the web; which means, web applications are unable to retrieve data with the intensity at which data are being generated from different facilities. Especially in the genomics and healthcare verticals, data are growing from petascale to exascale, and biomedical stakeholders are expecting seamless retrieval of these data over the web. In this paper, we argue that the bottleneck over the web can be reduced by minimizing the costly data conversion process and delegating query performance and processing loads to the specialized data storage engines over their native data models. We propose a web-based query federation mechanism-called PolyWeb-that unifies query answering over multiple native data models (CSV, RDB, and RDF). We emphasize two main challenges of query federation over native data models: 1) devise a method to select prospective data sources-with different underlying data models-that can satisfy a given query and 2) query optimization, join, and execution over different data models. We demonstrate PolyWeb on a cancer genomics use case, where it is often the case that a description of biological and chemical entities (e.g., gene, disease, drug, and pathways) spans across multiple data models and respective storage engines. In order to assess the benefits and limitations of evaluating queries over native data models, we evaluate PolyWeb with the state-of-the-art query federation engines in terms of result completeness, source selection, and overall query execution time.
Low Power Consuming Pulse Detector (2006)

A new approach for detection of ultra-wideband pulses based on a flip-flop circuit is proposed in this paper. A functional sample of the pulse detector was designed, manufactured and measured. The detector is able to detect a pulse 335 ps wide with a pulse repetition frequency (PRF) of at least 10 MHz, whereas a minimum detectable signal level is approximately 230 mV. The circuit draws a quiescent current of 1.8 mA from a single 3.6 V source and is therefore suitable for battery-powered devices. The designed pulse detector is sensitive only to the input signal level regardless of the pulse shape, which is particularly advantageous in severe multipath conditions.
Direct observation of conducting filaments on resistive switching of NiO thin films (2008)

The Hg∕NiO∕Pt capacitor with a Hg top electrode diameter of about 35μm showed the typical bistable resistive switching characteristic. After the removal of the Hg top electrode, we directly observed the formation and removal of filaments for a high resistive state (Roff) and a low resistive state (Ron) by conducting atomic force microscope (CAFM). CAFM images for Roff and Ron states directly exhibit evidence of the formation and removal of filaments on the surface, which supports well the filament model as a switching mechanism of resistive random access memory.
A seedless approach to continuous flow synthesis of gold nanorods (2011)

A direct seedless method for the continuous synthesis of gold nanorods has been developed using a sequential rotating tube-narrow channel processing microfluidic configuration, with the stock feed solutions (HAuCl(4)/CTAB/acetylacetone and AgNO(3)/CTAB/carbonate buffer) being stable for weeks.
Potential Role of Leptin in Endochondral Ossification (2002)

Leptin, a 16-kD circulating hormone secreted mainly by white adipose tissue, is a product of the obese (ob) gene. Leptin acts on human marrow stromal cells to enhance differentiation into osteoblasts and inhibit differentiation into adipocytes. Leptin also inhibits bone formation through a hypothalamic relay. To obtain a better understanding of the potential role of leptin in bone formation, the localization of leptin in endochondral ossification was examined immunohistochemically. High expression of leptin was identified in hypertrophic chondrocytes in the vicinity of capillary blood vessels invading hypertrophic cartilage and in a number of osteoblasts of the primary spongiosa beneath the growth plate. The hypertrophic chondrocytes far from the blood vessels were negative for leptin. Moreover, we detected the production and secretion of leptin by a mouse osteoblast cell line (MC3T3-E1) and a mouse chondrocyte cell line (MCC-5) by RT-PCR, immunocytochemistry, and Western blotting. Leptin enhanced the proliferation, migration, tube formation, and matrix metalloproteinase-2 (MMP-2) activity of human endothelial cells (HUVECs) in vitro. These findings suggest the possibility that leptin exerts its influence on endochondral ossification by regulating angiogenesis.
Adaptive frequency diversity using OFDM for wireless communications (2004)

An orthogonal frequency division multiplexing (OFDM) system with adaptive frequency diversity and decision combining is presented and analyzed. The system essentially involves the transmission of duplicate data over a subset of the total number of subcarriers available to the entire OFDM system. The decisions from these subsets are optimally combined at the receiver to arrive at an overall decision about the transmitted data. The optimal combination of these subsets is based on weighting factors which are adaptively chosen based on fading estimates over each subcarrier. The channel is assumed to be nonselective Rayleigh with additive, white Gaussian noise (AWGN). Computer simulations are presented for a variety of systems and compared with the performances of several nonadaptive OFDM systems. It is shown that the adaptive frequency diversity with decision combining in OFDM systems can provide enhanced bit error rate performance at the cost of data throughput of the system.
PrIoT: Prototyping the Internet of Things (2018)

In the context of fast growing Internet of Things (IoT), devices, applications and communication protocols-het-erogeneity poses serious problems for interoperability control and also for harmonized IoT development tools over a pletora of heterogeneous hardware provided by different manufacturers. In this paper we describe the IoT device heterogeneity control research problem, and describe the most relevant work related to IoT device operating systems, platforms, frameworks and APIs approaches. Then we propose our easy and fast IoT prototyping framework named PrIoT with our first scenario and use cases to show the benefit of our approach. The paper describes the main components of PrIoT framework that aims to leverage IoT adoption and usage from design to deployment and better handle the heterogeneity property of the IoT device, services and applications. The main design philosophy behind our PrIoT framework is "code once port anywhere".
Preparation and characterisation of tantalum carbide as an optional crucible material for bulk aluminium nitride crystal growth via physical vapour transport (2006)

Abstract This paper reports experimental measured and calculated phase distributions of carburised Ta sheets. Electron back scatter diffraction (EBSD) maps of carburised Ta samples have shown the progress of carburisation in respect of the annealing procedure. The initial stage is characterised by grain boundary and surface carburisation at lower temperatures (T = 2000 °C). At elevated annealing temperatures (T = 2200 °C) grain boundaries play a negligible role in the transformation of Ta to TaC. Sharply bounded phase layers of TaC 1–x and Ta 2 C are observed in this case. Fast grain coarsening below the carburisation temperature was found. A diffusion controlled phase formation model was introduced. The calculated concentrations of C are in good agreement with the measured phase widths. (© 2006 WILEY‐VCH Verlag GmbH & Co. KGaA, Weinheim)
Risk Factors Associated with Cardiovascular Diseases among Adults Attending Nnamdi Azikiwe University Teaching Hospital in Anambra State, Nigeria (2023)

Cardiovascular disease (CVD) is one of the major cause of death in Anambra state. This study aims to examine the association between risk factors and CVD among adult patients in Anambra state between years 2015 and 2022. This is a cross-sectional study that utilizes the 2015 and 2022 data on patients admitted and examined at Nnamdi Azikiwe University Teaching Hospital. A total of 5267 and 4371 patients’ records in 2015 and 2022 respectively were included. Over weight and obesity (BMI) were considered the most prevalent CVD risk factor, followed by hypertension. Compared to females, males were 1.48 times more likely to have CVD in 2015 which increased in 2022. Compared to non-alcohol consumers, those that take alcohol every day were 0.74 times more likely in 2015 and 0.35 times more likely in 2017 to have CVD. Compared to non-smokers, every day smokers were 1.87 times more likely in 2015 and 3.08 times more likely in 2022 to have CVD. Persons with high cholesterol compared to low cholesterol were 2.45 times more likely in 2015 and 1.54 times more likely in 2022 to have CVD. Furthermore, persons with hypertension compared to non-hypertensive persons were 3.61 times more likely in 2015 and 5.17 times more likely in 2022 to have CVD, and those with diabetes status compared with non-diabetic persons were 2.95 times more likely in 2015 and 2.01 times more likely in 2022 to have CVD. Preventable cardiovascular risk factor should be prime target of both public health and healthcare providers across the state and the entire nation.
Geraniol Restores Antibiotic Activities against Multidrug-Resistant Isolates from Gram-Negative Species (2009)

The essential oil of Helichrysum italicum significantly reduces the multidrug resistance of Enterobacter aerogenes, Escherichia coli, Pseudomonas aeruginosa, and Acinetobacter baumannii. Combinations of the two most active fractions of the essential oil with each other or with phenylalanine arginine beta-naphthylamide yield synergistic activity. Geraniol, a component of one fraction, significantly increased the efficacy of beta-lactams, quinolones, and chloramphenicol.
Nine weeks of bedtime diazoxide is well tolerated and improves β‐cell function in subjects with Type 2 diabetes (2003)

Bedtime treatment with diazoxide in Type 2 diabetic subjects on bedtime insulin and metformin has no significant side-effects, does not increase bedtime insulin supplementation, tends to ameliorate beta-cell function but fails to improve metabolic control.
Peptides Controlling Stiffness of Connective Tissue in Sea Cucumbers (1998)

We present the first evidence of a system of four bioactive peptides that affect the stiffness of sea cucumber dermis. The body wall dermis of sea cucumbers consists of catch connective tissue that is characterized by quick and drastic stiffness changes under nervous control. The peptides were isolated from the body wall, their amino acid sequences determined, and identical peptides synthesized. Two peptides, which we named holokinins, are homologous with bradykinin. We tested the effect of the peptides on the mechanical properties of sea cucumber dermis. Both of the holokinins softened the dermis, and a pentapeptide that we designated as NGIWYamide stiffened it. Both effects were reversibly suppressed by anesthesia with menthol. We called the fourth peptide stichopin; it had no direct effect on the stiffness of the dermis but suppressed action of the neurotransmitter acetylcholine reversibly. The results suggest that the peptides are neuropeptides and are part of a sophisticated system of neurotransmitters and neuromodulators that controls the connective tissue stiffness of sea cucumber dermis.
Preparation of Cyclopentadienyltricarbonylrhenium Complexes Using a Double Ligand-Transfer Reaction (1998)

A unique double ligand-transfer reaction is described for the preparation of substituted cyclopentadienyltricarbonylrhenium complexes. In the reaction, potassium perrhenate(VII) is reduced and carbonylated by treatment with chromium trichloride and chromium hexacarbonyl to provide a proposed alkoxy carbonyl rhenium(I) intermediate. It is believed that this intermediate then undergoes a Cp ligand-transfer reaction with an acyl-substituted ferrocene to provide the corresponding (acyl-cyclopentadienyl)tricarbonylrhenium complex. A strongly coordinating solvent such as methanol is necessary to promote the reduction of perrhenate, and a carbonyl substituent conjugated to the Cp ring is necessary to activate it for transfer from iron to rhenium. This method has potential value for the synthesis of rhenium and technetium organometallic radiopharmaceuticals.
Autologous platelet gel for tissue regeneration in degenerative disorders of the knee. (2012)

The patients were treated on an out-patient basis by a specifically created multidisciplinary team comprising a transfusion specialist, an orthopaedist and a radiologist, who collaborate in a symbiotic manner. The out-patient protocol exploits the regenerative properties of platelet-rich plasma, which is a low cost treatment; in practice, a diagnostic-therapeutic programme of lower intensity, but of high technical and professional quality is created. The strategy also reduces both the number of hospital services and the pharmacological support required, thereby optimising the use of health care resources.
Clinically Relevant Issues Related to Preheating Composites (2006)

Preheating composite has potential benefits, but should be used with knowledge of its limitations. Reheating of unused composite does not affect its degree of conversion, thus decreasing material waste. Heating of the composite preloaded in the delivery syringe enhances the temperature of extruded composite.
Operational Planning for Theater Anti-Submarine Warfare (2017)

Anti-submarine warfare (ASW) operational planning has always been a complicated process, involving the assignment of limited resources across multiple mission areas over an extended period of time. With the emergence of more advanced adversary submarine capabilities, the need to plan for this underwater threat has become even more important. We modify an existing optimization model of the ASW operational planning problem to add the ability to have multiple search platforms of several types, allow more complicated synergistic interactions between them, and then test it inside a realistic scenario to develop a tool to aid ASW planners. The scenario includes three types of ASW platforms: ships, submarines, and aircraft working out of two operating bases in the Western Pacific with six notional but geologically realistic mission areas. An optimal solution assigns combinations of multiple platforms to the mission areas to reach and maintain threshold levels, or the minimum probability of detection required, set by the commander. The model measures time and effort put forth by these platforms to achieve desired levels of achievement measured in terms of a weighted percent clearance.
Beneficial effects of paeoniflorin on non-alcoholic fatty liver disease induced by high-fat diet in rats (2017)

Non-alcoholic fatty liver disease (NAFLD) is the most prevalent form of chronic liver diseases. This study sought to evaluate the insulin-sensitizing effect of paeoniflorin (PF) on high-fat diet-induced NAFLD and possible molecular mechanisms. Male Sprague Dawley rats were fed a high-fat diet (HFD) for 10 weeks to establish the NAFLD model, and PF (20 mg/kg/d) was gavaged to the NAFLD rats for another four weeks. Our results demonstrated that HFD resulted in hepatocellular ballooning, micro-/macrovesicular steatosis, and oxidative stress in the liver, accompanied by increased serum total cholesterol (TC), triglyceride (TG), free fatty acid (FFA), alanine aminotransferase (ALT), and aspartate aminotransferase (AST) levels and homeostasis model of insulin resistance (HOMA-IR) index. PF treatment improved the biochemical and histopathological changes in NAFLD rats. Moreover, we also found that PF could inhibit lipid ectopic deposition via regulating lipid metabolism (inhibiting lipid synthesis of cholesterol and de novo pathway), and exert insulin sensitizing effect by regulating the insulin signaling pathway IRS/Akt/GSK3β and anti-oxidation. The study findings suggest that PF has therapeutic potential against NAFLD and that it acts through multiple signaling pathways.