gebhart/patrepeval huggingface dataset:
Characterization and functional expression in <i>Escherichia coli</i> of the sodium/proton/glutamate symport proteins of <i>Bacillus stearothermophilus</i> and <i>Bacillus caldotenax</i> (1992)

The genes encoding the Na+/H+/L-glutamate symport proteins of the thermophilic organisms Bacillus stearothermophilus (gltTBs) and Bacillus caldotenax (gltTBc) were cloned by complementation of Escherichia coli JC5412 for growth on glutamate as sole source of carbon, energy and nitrogen. The nucleotide sequences of the gltTBs and gltTBc genes were determined. In both cases the translated sequences corresponded with proteins of 421 amino acid residues (96.7% amino acid identity between GltTBs and GltTBc). Putative promoter, terminator and ribosome-binding-site sequences were found in the flanking regions. These expression signals were functional in E. coli. The hydropathy profiles indicate that the proteins are hydrophobic and could form 12 membrane-spanning regions. The Na+/H+ coupled L-glutamate symport proteins GltTBs and GltTBc are homologous to the strictly H+ coupled L-glutamate transport protein of E. coli K-12 (overall 57.2% identity). Functional expression of glutamate transport activity was demonstrated by uptake of glutamate in whole cells and membrane vesicles. In accordance with previous observations (de Vrij et al., 1989; Heyne et al., 1991), glutamate uptake was driven by the electrochemical gradients of sodium ions and protons.
Ecological importance of <i>Neotyphodium</i> spp. grass endophytes in agroecosystems (2006)

Abstract Neotyphodium spp. fungal endophytes form symbiotic associations with agronomic grasses with expression ranging from mutualistic to parasitic. In general, endophyte infection frequencies seem more variable in natural compared to pastoral situations, suggesting that expression and benefits attributable to endophyte infection depend on the resource environment in which the host–endophyte complex was formed and the conditions under which it is being grown. Emerging evidence suggests that expression is not always mutualistic or beneficial to the host in terms of productivity and persistence in resource‐limited environments. Expression of host–endophyte associations will vary depending on resource availability and environmental conditions that influence host physiology and growth, and herbivore behavior. New research suggest alkaloids and secondary metabolites produced by host–endophyte associations can have physiological functions in addition to acting as herbivore deterrents. Novel host–endophyte associations are being created that maintain insect and disease resistance, while having minimal detrimental impact on mammalian herbivores. The influence of host–endophyte associations on sward composition and soil food webs is only now coming to light. While novel endophyte associations and their attendant mechanisms can be considered beneficial in some respect, the associations may not be as adaptable to stressful or marginal resource environments and could have long‐term ecological impacts measured in terms of persistence and total productivity of the sward. We review the extensive published work on host–endophyte interactions and illustrate the complexity of host–endophyte associations and their interactions with environment, and the range of responses that occur.
In vitro histone lysine methylation by NSD1, NSD2/MMSET/WHSC1 and NSD3/WHSC1L (2014)

Our data highlight the versatility of NSD1, NSD2, and NSD3 for recognizing and methylating several histone lysine marks on histones H3 and H4. Our work provides a basis to design selective and specific NSDs inhibitors. We discuss the relevance of our findings for the development of NSD inhibitors amenable for novel chemotherapies.
Attitudes of referees in a multidisciplinary journal: An empirical analysis (2016)

This paper looks at 10 years of reviews in a multidisciplinary journal, The Journal of Artificial Societies and Social Simulation (JASSS) , which is the flagship journal of social simulation. We measured referee behavior and referees' agreement. We found that the disciplinary background and the academic status of the referee have an influence on the report time, the type of recommendation and the acceptance of the reviewing task. Referees from the humanities tend to be more generous in their recommendations than other referees, especially economists and environmental scientists. Second, we found that senior researchers are harsher in their judgments than junior researchers, and the latter accept requests to review more often and are faster in reporting. Finally, we found that articles that had been refereed and recommended for publication by a multidisciplinary set of referees were subsequently more likely to receive citations than those that had been reviewed by referees from the same discipline. Our results show that common standards of evaluation can be established even in multidisciplinary communities.
Transient thermal management using phase change materials with embedded graphite nanofibers for systems with high power requirements (2008)

Phase change materials (PCMs) exhibit excellent thermal storage capacity due to their high latent heat of transformation and have been successfully utilized in small volumes for transient thermal management of electronics. However, their low thermal conductivity makes it difficult to utilize large volumes of PCMs for transient thermal management of larger systems. To improve the thermal performance, high thermal conductivity graphite nanofibers are embedded into a paraffin PCM. The thermal effects of fiber loading levels, measured in weight percent (0 to 10%) are examined for a system with power loads between 100 and 700 W. The use of the graphite nanofiber enhancement is found to double the useful performance time of the PCM and lower the system operating temperature.
IFN-<i>gamma</i> plus glucocorticoids stimulate the expression of a newly identified human mononuclear phagocyte-specific antigen. (1988)

Glucocorticoid hormones, although able to exert profound immunosuppressive effects, do not suppress mononuclear phagocyte activation by IFN-gamma and may even enhance it. For example, expression and functional activity of the high affinity FcR for IgG on human mononuclear phagocytes (FcR gamma I) is increased by IFN-gamma and is maximal after co-treatment with IFN-gamma plus the glucocorticoid dexamethasone (DEX). To determine whether there are other mononuclear phagocyte surface Ag that are regulated in this manner, hybridomas were prepared using IFN-gamma-plus-DEX-treated human monocytes as immunogen. Five IgG1 mAb (Mac 2-8, 2-38, 2-48, 2-49, and 2-158) were developed that recognize a trypsin-sensitive mononuclear phagocyte-specific surface Ag of Mr 155,000. There was no detectable reactivity of these mAb to lymphocytes or granulocytes or to several cell lines, including U-937 and HL-60. The p155 Ag was detected on monocytes and increased significantly with time of culture or after treatment with DEX. Expression was maximal after co-treatment with rIFN-gamma plus DEX, but was inhibited or unaffected by treatment with IFN-gamma alone. For freshly isolated cells, expression of the p155 Ag was highest on peritoneal macrophages. Our results indicate that the p155 Ag is a newly identified Ag of the human mononuclear phagocyte lineage and may represent, in the least, a phenotypic marker of monocyte differentiation or maturation.
Polymorphism of the human MDR1 gene in Siberian and Central Asian populations (2007)

The multidrug resistance gene MDR1 (ABCB1) codes for a P-glycoprotein that acts as an ATP-dependent transporter and is involved in removing drugs, xenobiotics, and peptides from the cell. MDR1 is expressed in the brain, kidneys, liver, and gastrointestinal tract. The P-glycoprotein is thought to play a role in individual resistance to xenobiotics and infections. Several polymorphisms of MDR1 are associated with the level of its expression and resistance to various neurodegenerative and gastrointestinal diseases. The allele and haplotype frequencies, genetic differentiation, and linkage disequilibrium for five MDR1 single nucleotide polymorphisms (3435C/T, 2677G/T/A, 1236C/T, +139C/T, and −1G/A) were studied in the Russian, Tuvinian, and northern and southern Kyrgyz populations. Significant genetic differences were observed between Russians and northern Kyrgyz and between Tuvinians and northern Kyrgyz. The linkage disequilibrium pattern was characterized by high population specificity.
Architecture for restorable call allocation and fast VP restoration in mesh ATM networks (2002)

This paper presents an architecture for restorable call allocation and fast virtual path (VP) restoration in mesh ATM networks. In this architecture, virtual working and spare capacities needed for call allocation and restoration are reserved and released dynamically on a call-by-call basis at the time of call admission and termination. The architecture does not require advance assignment of spare and working capacities. To shorten the call processing delay, this is done in a parallel-distributed fashion. To provide restorable call allocation, parallel-distributed call processing algorithms of the sender-chooser type are suggested. The algorithms integrate on the call level virtual bandwidth allocation, virtual spare capacity assignment with fixed, alternate, or state-dependent routing. Each routing scheme leads to a particular tradeoff between call processing complexity, call setup delay, and bandwidth efficiency. For each pair of nodes, two sets of VPs are provisioned. The first is a working VP (WVP) set, to be used for call allocation during the normal operation. The second is a spare VP (SVP) set, to be used for VP restoration in the event of failure of network elements (NE). Each SVP protects a preassigned subset of the node pair WVPs. Each SVP is selected to be link/node disjoint from the WVPs that it is assigned to protect. This assures protection of the WVP set by a small number of SVPs. Since SVPs are preset and appropriate virtual spare capacities are reserved in advance, the architecture guarantees full restorability and provides very fast restoration. The restoration is done on the VP level in a self-healing manner. The suggested architecture requires only local information to be maintained at each node.
Interactive k-d tree GPU raytracing (2007)

Over the past few years, the powerful computation rates and high memory bandwidth of GPUs have attracted efforts to run raytracing on GPUs. Our work extends Foley et al.'s GPU k-d tree research. We port their kd-restart algorithm from multi-pass, using CPU load balancing, to single pass, using current GPUs' branching and looping abilities. We introduce three optimizations: a packetized formulation, a technique for restarting partially down the tree instead of at the root, and a small, fixed-size stack that is checked before resorting to restart. Our optimized implementation achieves 15 - 18 million primary rays per second and 16 - 27 million shadow rays per second on our test scenes.
Single Crystal and Polycrystalline 3C-SiC for MEMS Applications (2009)

Cantilever resonators have been fabricated from two types of materials, single crystal and polycrystalline 3C-SiC films. The films have been grown in a hot-wall chemical vapor deposition reactor on 100 mm diameter p-type boron-doped (100) Si wafer without rotation of the wafer. The crystal structure of the films have been accessed with X-ray diffraction. The cantilever devices have been fabricated using a one-step etch and release process; the beam length has been varied between 50 and 200 µm. Resonant frequencies in the range 110 KHz – 1.5 MHz and 50 – 750 KHz have been obtained for single crystal and polycrystalline SiC devices, respectively. Furthermore, the experimental resonance frequencies have been used to calculate the Young’s Modulus E for the two different types of SiC. The single crystal SiC, possessing a very high Young’s Modulus (446 GPa), should be an optimal material for RF-MEMS applications.
In Vivo Distribution of Chromium from Chromium Picolinate in Rats and Implications for the Safety of the Dietary Supplement (2002)

Chromium picolinate, [Cr(pic)(3)], is the second most popular nutritional supplement after calcium supplements. However, the supplement, unlike simple inorganic Cr(III) salts, has been shown in the presence of biological reducing agents in vitro to catalytically generate appreciable quantities of hydroxyl radicals, resulting in DNA damage. The complex has also been shown to be remarkably stable in vitro at neutral, basic, or weakly acidic pHs. Thus, the significance of this ability to generate hydroxyl radicals depends on whether the complex is absorbed by cells intact along with the stability and concentration of the complex in cells. Consequently, male Sprague Dawley rats have been injected with (51)Cr- and (3)H-labeled [Cr(pic)(3)]. The tissue distribution, urinary and fecal loss, and subcellular hepatocyte distribution and concentration of the labels suggest that [Cr(pic)(3)] has a lifetime of less than 1 day in vivo, minimizing the potential threat from the supplement itself.
Online Monitoring of Bacterial Growth with an Electrical Sensor (2018)

Herein, we developed an automatic electrical bacterial growth sensor (EBGS) based on a multichannel capacitively coupled contactless conductivity detector (C4D). With the use of the EBGS, up to eight culture samples of E. coli in disposable tubes were online monitored simultaneously in a noninvasive manner. Growth curves with high resolution (on the order of a time scale of seconds) were generated by plotting normalized apparent conductivity value against incubation time. The characteristic data of E. coli growth (e.g., growth rate) obtained here were more accurate than those obtained with optical density and contact conductivity methods. And the correlation coefficient of the regression line (r) for quantitative determination of viable bacteria was 0.9977. Moreover, it also could be used for other tasks, such as the investigation of toxic/stress effects from chemicals and antimicrobial susceptibility testing. All of these performances required neither auxiliary devices nor additional chemicals and biomaterials. Taken together, this strategy has the advantages of simplicity, accuracy, reproducibility, affordability, versatility, and miniaturization, liberating the users greatly from financial and labor costs.
Deep Learning Development Environment in Virtual Reality (2019)

Virtual reality (VR) offers immersive visualization and intuitive interaction. We leverage VR to enable any biomedical professional to deploy a deep learning (DL) model for image classification. While DL models can be powerful tools for data analysis, they are also challenging to understand and develop. To make deep learning more accessible and intuitive, we have built a virtual reality-based DL development environment. Within our environment, the user can move tangible objects to construct a neural network only using their hands. Our software automatically translates these configurations into a trainable model and then reports its resulting accuracy on a test dataset in real-time. Furthermore, we have enriched the virtual objects with visualizations of the model's components such that users can achieve insight about the DL models that they are developing. With this approach, we bridge the gap between professionals in different fields of expertise while offering a novel perspective for model analysis and data interaction. We further suggest that techniques of development and visualization in deep learning can benefit by integrating virtual reality.
High Performance Liquid Chromatography of Proteins on a Hydroxyapatite Column (1988)

Abstract High performance liquid chromatography on a spherical ceramic type hydroxyapatite has been applied successfully for the separation of various kinds of proteins. Twenty-one proteins of various origin, having an isoelectric point of 3.3–11.0 and a molecular weight of 11,000–190,000 daltons, were loaded on the column and eluted by linear gradient of sodium phosphate at pH 6.8. The chromatography showed good resolution and high recovery for the proteins. The analysis of the retention behavior, relation between capacity ratio and physicochemical properties of proteins, showed a tendency that the capacity ratio of protein increased with the pI value of the protein.
Transductive modeling with GA parameter optimization (2006)

While inductive modeling is used to develop a model (function) from data of the whole problem space and then to recall it on new data, transductive modeling is concerned with the creation of single model for every new input vector based on some closest vectors from the existing problem space. The model approximates the output value only for this input vector. However, deciding on the appropriate distance measure, on the number of nearest neighbors and on a minimum set of important features/variables is a challenge and is usually based on prior knowledge or exhaustive trial and test experiments. This paper proposes a genetic algorithm (GA) approach for optimizing these three factors. The method is tested on several datasets from UCI repository for classification tasks and results show that it outperforms conventional approaches. The drawback of this approach is the computational time complexity due to the presence of GA, which can be overcome using parallel computer systems due to the intrinsic parallel nature of the algorithm.
Synthesis of a Precursor to Sacubitril Using Enabling Technologies (2015)

An efficient preparation of a precursor to the neprilysin inhibitor sacubitril is described. The convergent synthesis features a diastereoselective Reformatsky-type carbethoxyallylation and a rhodium-catalyzed stereoselective hydrogenation for installation of the two key stereocenters. Moreover, by integrating machine-assisted methods with batch processes, this procedure allows a safe and rapid production of the key intermediates which are promptly transformed to the target molecule (3·HCl) over 7 steps in 54% overall yield.
Magneto-optical properties of PdCo based multilayered films (1989)

The magnetooptical and magnetic properties of multilayered films composed of PdCo alloy and other noble metal (Pd, Pt, or Cu) layers were investigated. Multilayered films were prepared by RF magnetron sputtering. Kerr rotation spectra (275-800 nm) of Pd/Co multilayered films resemble those of PdCo alloys. In the films composed of PdCo alloy and Pt bilayers, the Kerr rotation increases with increasing Pt content while the perpendicular anisotropy decreases.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">></ETX>
Two-dimensional focusing holographic grating coupler (1980)

Two-dimensional focusing grating couplers have been produced using holographic interferometry with freely propagating wave fronts. Theoretical considerations lead to an optimized holographic arrangement. Experimental grating couplers with 2.2-μm focus-spot diameter have been achieved.
Design of Multi-Frequency Compact Antennas for Automotive Communications (2012)

Two designs of multi-band antennas for automotive communications are presented. Both antennas are designed to operate in four frequency bands (GSM, E-GSM, DCS, PCS) and are intended to be integrated in a PCB, placed inside a plastic box and mounted under the dashboard of the vehicle. The first design is a planar printed antenna fully integrated into the printed circuit board (PCB), thus reducing the cost virtually to zero; the second design is a three dimensional antenna, which does not require any dedicated space on the PCB. Both antennas have been designed taking into account the presence of the other electronic components on the PCB. The simulated reflection coefficients and radiation patterns of both antennas are in good agreement with prototype measurements.
Inhibition of 15-PGDH prevents ischemic renal injury by the PGE<sub>2</sub>/EP<sub>4</sub>signaling pathway mediating vasodilation, increased renal blood flow, and increased adenosine/A<sub>2A</sub>receptors (2020)

In the present study, we demonstrated the marked activity of SW033291, an inhibitor of 15-hydoxyprostaglandin dehydrogenase (15-PGDH), in preventing acute kidney injury (AKI) in a murine model of ischemia-reperfusion injury. AKI due to ischemic injury represents a significant clinical problem. PGE<sub>2</sub> is vasodilatory in the kidney, but it is rapidly degraded in vivo due to catabolism by 15-PGDH. We investigated the potential of SW033291, a potent and specific 15-PGDH inhibitor, as prophylactic treatment for ischemic AKI. Prophylactic administration of SW033291 significantly increased renal tissue PGE<sub>2</sub> levels and increased post-AKI renal blood flow and renal arteriole area. In parallel, prophylactic SW033291 decreased post-AKI renal morphology injury scores and tubular apoptosis and markedly reduced biomarkers of renal injury that included blood urea nitrogen, creatinine, neutrophil gelatinase-associated lipocalin, and kidney injury molecule-1. Prophylactic SW033291 also reduced post-AKI induction of proinflammatory cytokines, high-mobility group box 1, and malondialdehyde. Protective effects of SW033291 were mediated by PGE<sub>2</sub> signaling, as they could be blocked by pharmacological inhibition of PGE<sub>2</sub> synthesis. Consistent with activation of PGE<sub>2</sub> signaling, SW033291 induced renal levels of both EP<sub>4</sub> receptors and cAMP, along with other vasodilatory effectors, including AMP, adenosine, and the adenosine A<sub>2A</sub> receptor. The protective effects of SW0333291 could largely be achieved with a single prophylactic dose of the drug. Inhibition of 15-PGDH may thus represent a novel strategy for prophylaxis of ischemic AKI in multiple clinical settings, including renal transplantation and cardiovascular surgery.
Practical Data Science. An Introduction to Supervised Machine Learning and Pattern Classification: The Big Picture (2015)

Practical Data Science. Slides of an 1 hour introductory talk about predictive modeling using Machine Learning with a focus on supervised learning.
Characterization of the binding, kinetics, and redox stability of vanadium(IV) and vanadium(V) protein complexes in serum (1986)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTCharacterization of the binding, kinetics, and redox stability of vanadium(IV) and vanadium(V) protein complexes in serumN. Dennis Chasteen, John K. Grady, and Clive E. HollowayCite this: Inorg. Chem. 1986, 25, 16, 2754–2760Publication Date (Print):July 1, 1986Publication History Published online1 May 2002Published inissue 1 July 1986https://pubs.acs.org/doi/10.1021/ic00236a021https://doi.org/10.1021/ic00236a021research-articleACS PublicationsRequest reuse permissionsArticle Views537Altmetric-Citations140LEARN ABOUT THESE METRICSArticle Views are the COUNTER-compliant sum of full text article downloads since November 2008 (both PDF and HTML) across all institutions and individuals. These metrics are regularly updated to reflect usage leading up to the last few days.Citations are the number of other articles citing this article, calculated by Crossref and updated daily. Find more information about Crossref citation counts.The Altmetric Attention Score is a quantitative measure of the attention that a research article has received online. Clicking on the donut icon will load a page at altmetric.com with additional details about the score and the social media presence for the given article. Find more information on the Altmetric Attention Score and how the score is calculated. Share Add toView InAdd Full Text with ReferenceAdd Description ExportRISCitationCitation and abstractCitation and referencesMore Options Share onFacebookTwitterWechatLinked InRedditEmail Other access optionsGet e-Alertsclose Get e-Alerts