gebhart/patrepeval huggingface dataset:
A New Proposal for the Pathogenic Mechanism of Non-Coeliac/Non-Allergic Gluten/Wheat Sensitivity: Piecing Together the Puzzle of Recent Scientific Evidence (2017)

Non-coeliac/non-allergic gluten/wheat sensitivity (NCG/WS) is a gluten-related disorder, the pathogenesis of which remains unclear. Recently, the involvement of an increased intestinal permeability has been recognized in the onset of this clinical condition. However, mechanisms through which it takes place are still unclear. In this review, we attempt to uncover these mechanisms by providing, for the first time, an integrated vision of recent scientific literature, resulting in a new hypothesis about the pathogenic mechanisms involved in NCG/WS. According to this, the root cause of NCG/WS is a particular dysbiotic profile characterized by decreased butyrate-producing-<i>Firmicutes</i> and/or <i>Bifidobacteria</i>, leading to low levels of intestinal butyrate. Beyond a critical threshold of the latter, a chain reaction of events and vicious circles occurs, involving other protagonists such as microbial lipopolysaccharide (LPS), intestinal alkaline phosphatase (IAP) and wheat α-amylase trypsin inhibitors (ATIs). NCG/WS is likely to be a multi-factor-onset disorder, probably transient and preventable, related to quality and balance of the diet, and not to the presence of gluten in itself. If future studies confirm our proposal, this would have important implications both for the definition of the disease, as well as for the prevention and therapeutic-nutritional management of individuals with NCG/WS.
Complication of Intranasal Midazolum (1993)

The recent article by Theroux et al on the use of intranasal midazolam was interesting. The purpose of this letter is to share our experience regarding a complication associated with the use of this drug. The need for an ideal sedative for pediatric patients undergoing diagnostic and short surgical procedures is well established. In the past 5 years, the literature is replete with reports on the efficacy, ease of administration, and tolerance of intranasal midazolam. Currently, our group is also evaluating the efficacy of intranasal midazolam in pediatric patients (aged 2 to 12 years) undergoing upper endoscopy. Soon after beginning enrollment, however, it became apparent that intranasal midazolam causes intense burning, irritation, and lacrimation on instillation into the nares.
A comprehensive survey of the grapevine VQ gene family and its transcriptional correlation with WRKY proteins (2015)

WRKY proteins are a class of transcription factors (TFs) involved in the regulation of various physiological processes, including the plant response to biotic and abiotic stresses. Recent studies in Arabidopsis have revealed that some WRKY TFs interact with a class of proteins designed as VQ proteins because of their typical conserved motif (FxxxVQxLTG). So far, no information is available about the genomic organization and the function of VQ motif-containing protein in grapevine (Vitis vinifera L). In the current study, we analyzed the 12X V1 prediction of the nearly homozygous PN40024 genotype identifying up to 18 predicted VQ genes (VvVQ). VvVQs phylogenetic and bioinformatic analyses indicated that the intron-exon structures and motif distribution are highly divergent between different members of the grapevine VQ family. Moreover, the analysis of the V. vinifera cv. Corvina expression atlas revealed a tissue- and stage-specific expression of several members of the family which also showed a significant correlation with WRKY TFs. Grapevine VQ genes also exhibited altered expression in response to drought, powdery mildew infection, salicylic acid (SA) and ethylene (ETH) treatments. The present study represents the first characterization of VQ genes in a grapevine genotype and it is a pivotal foundation for further studies aimed at functionally characterizing this mostly unknown grapevine multigenic family.
ChemInform Abstract: APPLICATION OF WATER GAS SHIFT REACTION TO ORGANIC SYNTHESIS. C‐ALKYLATION OF KETONES AND PICOLINES, AND REDUCTIVE DIMERIZATION OF ALDEHYDES (1985)

Abstract Cyclohexanon (I) liefert mit CO, H 2 O und Formaldehyd (II) unter Rh‐Katalyse die Methylcyclohexanone (III) und (IV).
Three-dimensional simulation of a microplasma pump (2009)

We present a three-dimensional simulation of dielectric barrier discharge (DBD) using the finite element based multiscale ionized gas (MIG) flow code. The two-species hydrodynamic plasma model coupled Poisson equation and Navier–Stokes equation are solved using MIG flow code to predict complicated flow structure inside a plasma induced micropump. The advantage of such a micropump is rapid on/off switching without any moving parts. Results show a reasonable distribution for ion and electron densities as well as an electric field. The key factors of microplasma pump design are the location of actuators and input voltage. The flow rate of the microplasma pump is on the order of ml min−1. Such a flow rate may be beneficial for micropropulsion in space.
Urokinase-type plasminogen activator receptor reversibly dissociates from complement receptor type 3 (α M β 2’ CD11b/CD18) during neutrophil polarization (1996)

Previous studies have shown that the leukocyte integrin CR3 (CD11b/CD18) is physically associated with the urokinase-type plasminogen activator receptor (uPAR;CD87), a glycosyl-phosphatidylinositol (GPI)-linked protein, in resting neutrophil membranes. We now show that uPAR-to-CR3 interactions are reversible, correlating with cell shape. Neutrophils were first labeled with fluorescein conjugates of anti-CR3 F(ab')2 fragments followed by capping using a second-step F(ab')2 directed against murine F(ab')2s. Cells were then probed using rhodamine-conjugated anti-uPAR F(ab')2s. Although uPAR co-caps with CR3 on resting cells, uPAR was found to dissociate or "uncap" coincident with spontaneous cell polarization for migration. CR3 caps transformed into uropods while uPAR accumulated at lamellipodia of polarized cells. Capping was unnecessary for the observed distribution of CR3 and uPAR since the anti-CR3 and anti-uPAR F(ab')2s traffic to the uropod and lamellipodium, respectively, during polarization of uncapped cells. These receptors reassociate when cells return to a spherical morphology. In contrast to uPAR, Fc gamma RIIIB did not dissociate from CR3 caps during cell polarization. Resonance energy transfer (RET) microscopy was used to image the spatial distribution of RET and to follow the kinetics of association and dissociation. Initial levels of RET dramatically fell during cell polarization, but did not change on cells fixed with paraformaldehyde. Receptor reassociation was a biphasic process with initial reassociation about the perimeter of a cap, followed by a plateau and a slower rise in RET within a cap. We suggest that cells regulate receptor-receptor associations depending upon their physiologic activities.
Hyperdegradation of proteins in Escherichia coli rho mutants. (1979)

An Escherichia coli mutant, HDF026, defective for growth of phage T4, has been characterized biochemically and genetically. The mutant displays an elevated level of degradation of abnormal proteins, such as puromycyl polypeptides or canavanine-containing polypeptides. Genetically, HDF026 appears to be an allele of rho, which also encodes the transcription termination factor and RNA-dependent ATPase, Rho. The mutation contransduces by phage PI with ilv, weakly suppresses polar mutations in gal, and permits some growth of lambda N- phage. Temperature sensitive lambda mutants in gene O exhibit a reduced efficiency of plating at intermediate temperature on HDF026 mutants; presumably the lambda Ots protein is rapidly degraded in these strains. The ability of wild-type lambda to grow on HDF026 is also reduced, apparently the result of the lambda N product deficiency. gal escape synthesis, which reflects the level of lambda N activity, is decreased 50-66% in the HDF026 mutant. lambda r32, which requires more N function than wild-type phage, does not grow at all in HDF026. A lon mutation, which decreases protein degradation, partially reverses some of these phenotypes, suggesting that they are related to the protein hyperlability of HDF026.
Green fluorescent protein as an indicator to monitor membrane protein overexpression in <i>Escherichia coli</i> (2001)

Escherichia coli is one of the most widely used vehicles to overexpress membrane proteins (MPs). Currently, it is not possible to predict if an overexpressed MP will end up in the cytoplasmic membrane or in inclusion bodies. Overexpression of MPs in the cytoplasmic membrane is strongly favoured to overexpression in inclusion bodies, since it is relatively easy to isolate MPs from membranes and usually impossible to isolate them from inclusion bodies. Here we show that green fluorescent protein (GFP), when fused to an overexpressed MP, can be used as an indicator to monitor membrane insertion versus inclusion body formation of overexpressed MPs in E. coli. Furthermore, we show that an overexpressed MP can be recovered from a MP-GFP fusion using a site specific protease. This makes GFP an excellent tool for large-scale MP target selection in structural genomics projects.
Automatic player labeling, tracking and field registration and trajectory mapping in broadcast soccer video (2011)

In this article, we present a method to perform automatic player trajectories mapping based on player detection, unsupervised labeling, efficient multi-object tracking, and playfield registration in broadcast soccer videos. Player detector determines the players' positions and scales by combining the ability of dominant color based background subtraction and a boosting detector with Haar features. We first learn the dominant color with accumulate color histogram at the beginning of processing, then use the player detector to collect hundreds of player samples, and learn player appearance codebook by unsupervised clustering. In a soccer game, a player can be labeled as one of four categories: two teams, referee or outlier. The learning capability enables the method to be generalized well to different videos without any manual initialization. With the dominant color and player appearance model, we can locate and label each player. After that, we perform multi-object tracking by using Markov Chain Monte Carlo (MCMC) data association to generate player trajectories. Some data driven dynamics are proposed to improve the Markov chain's efficiency, such as label consistency, motion consistency, and track length, etc. Finally, we extract key-points and find the mapping from an image plane to the standard field model, and then map players' position and trajectories to the field. A large quantity of experimental results on FIFA World Cup 2006 videos demonstrate that this method can reach high detection and labeling precision, reliably tracking in scenes of player occlusion, moderate camera motion and pose variation, and yield promising field registration results.
Structural Changes Associated with Switching Activities of Human Iron Regulatory Protein 1 (2002)

Metazoan iron regulatory protein 1 is a dual activity protein, being either an aconitase or a regulatory factor binding to messenger RNA involved in iron homeostasis. Sequence comparisons and site-directed mutagenesis experiments have supported a structural relationship between mitochondrial aconitase and iron regulatory protein 1. The structural properties of human recombinant iron regulatory protein 1 have been probed in the present work. Although iron-free iron regulatory protein 1 displays a significantly larger radius of gyration measured by small-angle neutron scattering than calculated for mitochondrial aconitase, binding of either the [4Fe-4S] cluster needed for aconitase activity or of a RNA substrate turns iron regulatory protein 1 into a more compact molecule. These conformational changes are associated with the gain of secondary structural elements as indicated by circular dichroism studies. They likely involve alpha-helices covering the substrate binding cleft of cytosolic aconitase, and they suggest an induced fit mechanism of iron-responsive element recognition. These studies refine previously proposed models of the "iron-sulfur switch" driving the biological function of human iron regulatory protein 1, and they provide a structural framework to probe the relevance of the numerous cellular molecules proposed to affect its function.
Development of Recombinant Adenovirus Carrying MicroRNA-regulated Gene Expression System (2010)

Target tissue-specific delivery and transcription of foreign genes are desirable for safe and effective gene therapy. Two approaches for this purpose, "Targeted Delivery" and "Targeted Expression", have been mainly reported. Among "Targeted Expression" approaches, microRNA (miRNA)-mediated "post-transcriptional de-targeting" has been recently demonstrated, and much attention has been focused on this approach. MiRNAs are an approximately 22-nt length non-coding RNA, and bind to imperfectly complementary sequences in the 3'-untranslated region (UTR) of target mRNA, leading to suppression of gene expression via post-transcriptional regulation. First, in order to reduce the hepatic transduction by Ad vectors, complementary sequences of liver-specific miRNA, miR-122a, were inserted into the 3'-UTR of the transgene expression cassette. Intratumor injection of this Ad vector resulted in approximately 100-fold lower hepatic expression than that of the conventional Ad vector, without reducing gene expression in the tumor. Second, complementary sequences for miRNAs selectively down-regulated in tumor cells were inserted into the E1 gene expression cassette in oncolytic Ads, which exhibit tumor cell-specific replication and antitumor effects. Recent studies demonstrated that expression of several miRNAs is exclusively reduced in tumor cells. Oncolytic Ads containing the miRNA complementary sequences showed reduced replication in the normal cells, without altering the antitumor effects. MiRNA-regulated gene expression system mediates "post-transcriptional de-targeting", in which translation of transgene is suppressed in a tissue-specific manner; however, tissue-specific transgene expression can be achieved by taking tropism of gene delivery vehicles into consideration and reducing the transgene expression in untargeted organs via miRNA-regulated gene expression system.
Problems in modeling UWB channels (2003)

Ultrawideband (UWB) channel models pose a new set of problems to the designer. The very wide radio-frequency bandwidth employed by a UWB radio means that more structure of the channel is exposed by the fine time-resolution of the UWB radio receiver. Issues pertinent to design and simulation of UWB communication and ranging systems are illustrated through a set of UWB measurements.
Characterization of Neospora caninum Protease, NcSUB1 (NC-p65), with Rabbit Anti-N54 (2002)

Kitland Louie, Robert Nordhausen, Thomas W. Robinson, Bradd C. Barr, Patricia A. Conrad, Characterization of Neospora caninum Protease, NcSUB1 (NC-p65), with Rabbit Anti-N54, The Journal of Parasitology, Vol. 88, No. 6 (Dec., 2002), pp. 1113-1119
In Vitro Activity of Ceftazidime Combined with NXL104 versus Pseudomonas aeruginosa Isolates Obtained from Patients in Canadian Hospitals (CANWARD 2009 Study) (2011)

The in vitro activity of ceftazidime in combination with NXL104 versus 470 Pseudomonas aeruginosa clinical isolates was evaluated using Clinical and Laboratory Standards Institute (CLSI) broth microdilution methods. Ceftazidime had MIC₉₀s of 8 μg/ml and 32 μg/ml in the presence and absence of NXL104, respectively. Of 25 multidrug-resistant P. aeruginosa isolates, the percentages with a ceftazidime MIC of ≤8 μg/ml with and without NXL104 were 60% and 4%, respectively. These data suggest that the ceftazidime-NXL104 combination may prove useful for treating many P. aeruginosa infections.
Strategies of antioxidant defense (1993)

Cellular protection against the deleterious effects of reactive oxidants generated in aerobic metabolism, called oxidative stress, is organized at multiple levels. Defense strategies include three levels of protection; prevention, interception, and repair. Regulation of the antioxidant capacity includes the maintenance of adequate levels of antioxidant and the localization of antioxidant compounds and enzymes. Short-term and long-term adaptation and cell specialisation in these functions are new areas of interest. Control over the activity of prooxidant enzymes, such as NADPH oxidase and NO synthases, is crucial. Synthetic antioxidants mimic biological strategies.
Mother nature as sludge thickener (1982)

Shows how modifying the process to direct filtration and letting seasonal changes do the rest solved compliance and growth problems for the Lake Ontario Filtration Plant in upstate New York. By combining an unconventional backwash system that relies on natural freezing and thawing cycles to dewater alum sludge with an innovative filtration system using water from Lake Ontario, the water treatment plant has been significantly upgraded. The new process, which complies with new state discharge regulations, has doubled the facility's capability with minimal capital expenditures. Direct filtration is the coagulation and filtration of raw waters without the flocculation and subsequent settling steps. The process depends upon the formation of a pinpoint filterable floc instead of a large settleable floc used in conventional processes. This results in substantial reduction in alum feed and elimination of settling aids and/or floc weighting agents, and ultimately in a reduction in the amount of sludge produced. Observation of the sludge delivered to the freezing/thawing beds led to the conclusion that regardless of the pumped sludge's concentration, it separated into sludge and clear supernatant. The operating sequence evolved to the following: plugging a bed drain line by inserting plugs in holes drilled at different levels inmore » the upturned drainline; filling the bed and letting it stand at least overnight (the hose was moved to the next bed to maintain continuity of pumping); removing the plugs and decanting the clear supernatant to the lagoons.« less
Dual-Targeting Approach Degrades Biofilm Matrix and Enhances Bacterial Killing (2019)

Biofilm formation is a key virulence factor responsible for a wide range of infectious diseases, including dental caries. Cariogenic biofilms are structured microbial communities embedded in an extracellular matrix that affords bacterial adhesion-cohesion and drug tolerance, making them difficult to treat using conventional antimicrobial monotherapy. Here, we investigated a multitargeted approach combining exopolysaccharide (EPS) matrix-degrading glucanohydrolases with a clinically used essential oils-based antimicrobial to potentiate antibiofilm efficacy. Our data showed that dextranase and mutanase can synergistically break down the EPS glucan matrix in preformed cariogenic biofilms, markedly enhancing bacterial killing by the antimicrobial agent (3-log increase versus antimicrobial alone). Further analyses revealed that an EPS-degrading/antimicrobial (EDA) approach disassembles the matrix scaffold, exposing the bacterial cells for efficient killing while concurrently causing cellular dispersion and "physical collapse" of the bacterial clusters. Unexpectedly, we found that the EDA approach can also selectively target the EPS-producing cariogenic bacteria Streptococcus mutans with higher killing specificity (versus other species) within mixed biofilms, disrupting their accumulation and promoting dominance of commensal bacteria. Together, these results demonstrate a dual-targeting approach that can enhance antibiofilm efficacy and precision by dismantling the EPS matrix and its protective microenvironment, amplifying the killing of pathogenic bacteria within.
Microprocessor Assisted Tuple Access, Decompression and Assembly for Statistical Database Systems (1982)

A methodology is formulated for determining if a microprocessor-based specialized system is practical for the solution of a problem in an application. This methodology is followed in the description and justification of of a back-end system for use with a statistical database system. The functions to be performed by the back-end system include those related to attribute partitioning, compression, and data access. It is shown that the system designed (the Microprocessor Assist System) will be costeffective in increasing the performance of a statistical data management system.
High-frequency oscillations as indicators of neural control mechanisms in human respiration, mastication, and speech (1990)

1. Electromyograms (EMGs) were recorded from the right and left ventrolateral surfaces of the chest wall to study the activity of the diaphragm during three tasks: moderately deep breathing, speech production, and speechlike breathing in which subjects mimicked their speech breathing pattern but did not vocalize. In a second experimental protocol, activity of right and left masseter muscles was recorded in three conditions: chewing, rhythmic clenching, and speech. 2. EMGs were analyzed in the frequency domain by computing the average spectrum of 128-ms intervals selected from the rising phase of the EMG in 30 repetitions of each task. Coherence functions between bilateral pairs of EMGs were computed and examined for significant coherence in the range of 20-230 Hz. 3. In the deep breathing condition, significant coherence was present in two ranges, 20-60 Hz and 60-110 Hz. Oscillations in the 60- to 110-Hz range have long been associated with the operation of the primary respiratory pattern generator, and the present results replicate earlier reports of correlated oscillations in this range in bilateral recordings of human respiratory muscles during voluntarily controlled breathing. 4. In speech and speechlike breathing, correlated oscillations in the 60- to 110-Hz range were significantly reduced. This result supports the hypothesis that the neural circuitry characterized by high-frequency oscillations (HFOs) in the 60- to 110-Hz range, possibly a central pattern generator (CPG), is not the primary source of drive to respiratory motoneuron pools in speech. 5. During chewing, highly correlated oscillations were observed in right and left masseter activity. Significant coherence occurred in the range of 20-140 Hz, with very large peaks in the 20- to 60-Hz band. This result is interpreted in light of studies of rhythmic jaw movements elicited by cortical stimulation in experimental animals and studies of the reflex organization of the jaw-closing muscles. It is possible that highly correlated oscillations in the 20- to 60-Hz band arise from a central command system, such as a pattern generator, from reflexes, or from an interaction of central and reflex inputs. 6. In most subjects, nonzero coherence in the 20- to 60-Hz band also was observed during clenching and speech; however, levels of coherence in the 20- to 60-Hz band were significantly reduced in these conditions compared with chewing. 7. Taken together, the present results suggest that coherent HFOs observed in consistent frequency ranges across subjects are characteristic of human motor behaviors that are likely to involve pattern generation circuitry.