gebhart/patrepeval huggingface dataset:
Mesocarp localization of a bi‐functional resveratrol/hydroxycinnamic acid glucosyltransferase of Concord grape (Vitis labrusca) (2007)

Resveratrol is a stilbene with well-known health-promoting effects in humans that is produced constitutively or accumulates as a phytoalexin in several plant species including grape (Vitis sp.). Grape berries accumulate stilbenes in the exocarp as cis- and trans-isomers of resveratrol, together with their respective 3-O-monoglucosides. An enzyme glucosylating cis- and trans-resveratrol was purified to apparent homogeneity from Concord (Vitis labrusca) grape berries, and peptide sequencing associated it to an uncharacterized Vitis vinifera full-length clone (TC38971, tigr database). A corresponding gene from Vitis labrusca (VLRSgt) had 98% sequence identity to clone TC38971 and 92% sequence identity to a Vitis viniferap-hydroxybenzoic acid glucosyltransferase that produces glucose esters. The recombinant enzyme was active over a broad pH range (5.5-10), producing glucosides of stilbenes, flavonoids and coumarins at higher pH and glucose esters of several hydroxybenzoic and hydroxycinnamic acids at low pH. Vitis labrusca grape berries accumulated both stilbene glucosides and hydroxycinnamic acid glucose esters, consistent with the bi-functional role of VLRSgt in stilbene and hydroxycinnamic acid modification. While phylogenetic analysis of VLRSgt and other functionally characterized glucosyltransferases places it with other glucose ester-producing enzymes, the present results indicate broader biochemical activities for this class of enzymes.
Treatment of imbalance with varenicline (Chantix®): report of a patient with fragile X tremor/ataxia syndrome (2008)

We describe the case of a man with Fragile X tremor/ataxia syndrome, whose ataxia and imbalance improved with the use of varenicline (Chantix) and reverted to baseline 10 days after varenicline was discontinued. Varenicline was started as part of a smoking cessation program.
Lithiated Benzothiophenes and Benzofurans Require 2‐Silyl Protection to Avoid Anion Migration. (2004)

Abstract For Abstract see ChemInform Abstract in Full Text.
Probing the Helical Secondary Structure of Short‐Chain β‐Peptides (1996)

Abstract Structural prerequisites for the stability of the 3 1 helix of β‐peptides can be defined from inspection of models ( Figs. 1 and 2 ): lateral non‐H‐substituents in 2‐ and 3‐position on the 3‐amino‐acid residues of the helix are allowed, axial ones are forbidden. To be able to test this prediction, we synthesized a series of heptapeptide derivatives Boc‐(β‐HVal‐β‐HAla‐β‐HLeu‐Xaa‐β‐HVal‐β‐HAla‐β‐HLeu)‐OMe 13–22 (Xaa = α‐ or β‐amino‐acid residue) and a β‐depsipeptide 25 with a central ( S )‐3‐hydroxybutanoic‐acid residue (Xaa = –OCH(Me)CH 2 C(O)–) ( Schemes 1 3 ). Detailed NMR analysis (DQF‐COSY, HSQC, HMBC, ROESY, and TOCSY experiments) in methanol solution of the β‐hexapeptide H(‐β‐HVal‐β‐HAla‐β‐HLeu) 2 ‐OH ( 1 ) and of the β‐heptapeptide H‐β‐HVal‐β‐HAla‐β‐HLeu‐( S,S )‐β‐HAla(αMe)‐β‐HVal‐β‐HAla‐ β‐HLeu‐OH ( 22 ), with a central (2 S ,3 S )‐3‐amino‐2‐methylbutanoic‐acid residue, confirm the helical structure of such β‐peptides (previously discovered in pyridine solution) ( Fig.3 and Tables 1–5 ). The CD spectra of helical β‐peptides, the residues of which were prepared by (retentive) Arndt‐Eistert homologation of the (S)‐ or L ‐α‐amino acids, show a trough at 215 nm. Thus, this characteristic pattern of the CD spectra was taken as an indicator for the presence of a helix in methanol solutions of compounds 13–22 and 25 (including partially and fully deprotected forms) ( Figs.4–6 ). The results fully confirm predicted structural effects: incorporation of a single ‘wrong’ residue (( R )‐β‐HAla, β‐HAib, ( R , S )‐β‐HAla(α Me), or N ‐Me‐β‐HAla) in the central position of the β‐heptapeptide derivatives A (see 17, 18, 20 , or 21 , resp.) causes the CD minimum to disappear. Also, the β‐heptadepsipetide 25 (missing H‐bond) and the β‐heptapeptide analogs with a single α‐amino‐acid moiety in the middle ( 13 and 14 ) are not helical, according to this analysis. An interesting case is the heptapeptide 15 with the central achiral, unsubstituted 3‐aminopropanoic‐acid moiety: helical conformation appears to depend upon the presence or absence of terminal protection and upon the solvent (MeOH vs. MeOH/H 2 O).
Optimizing background email sync on smartphones (2013)

Email is a key application used on smartphones. Even when the phone is in stand-by mode, users expect the phone to continue syncing with an email server to receive new mes-sages. Each such sync operation wakes up the smartphone for data reception and processing. In this paper, we show that this "cost of email sync" in stand-by mode constitutes a significant source of energy consumption, and thus reduces battery life. We quantify the power performance of different existing email clients on two smartphone platforms, An-droid and Windows Phone, and study the impact of system parameters such as email size, inbox size, and pull vs. push. Our results show that existing email clients do not handle email sync in an energy efficient way. This is because the underlying protocols and architectures are not designed for the specific needs of operating in stand-by mode. Based on our findings, we derive general design principles for energy-efficient event handling on smartphones, and apply these principles to the case of email sync and implement our techniques on commercial smartphones. Experimental results show that our techniques are able to significantly reduce energy cost of email sync by 49.9% on average with our experiment settings.
Evaluation of Two Least Toxic Integrated Pest Management Programs for Managing Bed Bugs (Heteroptera: Cimicidae) With Discussion of a Bed Bug Intercepting Device (2009)

The cost and effectiveness of two bed bug (Cimex lectularius L.) integrated pest management (IPM) programs were evaluated for 10 wk. Sixteen bed bug-infested apartments were chosen from a high-rise low-income apartment building. The apartments were randomly divided into two treatment groups: diatomaceous earth dust-based IPM (D-IPM) and chlorfenapyr spray-based IPM (S-IPM). The initial median (minimum, maximum) bed bug counts (by visual inspection) of the two treatment groups were 73.5 (10, 352) and 77 (18, 3025), respectively. A seminar and an educational brochure were delivered to residents and staff. It was followed by installing encasements on mattresses and box springs and applying hot steam to bed bug-infested areas in all 16 apartments. Diatomaceous earth dust (Mother Earth-D) was applied in the D-IPM group 2 d after steaming. In addition, bed bug-intercepting devices were installed under legs of infested beds or sofas or chairs to intercept bed bugs. The S-IPM group only received 0.5% chlorfenapyr spray (Phantom) after the nonchemical treatments. All apartments were monitored bi-weekly and retreated when necessary. After 10 wk, bed bugs were eradicated from 50% of the apartments in each group. Bed bug count reduction (mean +/- SEM) was 97.6 +/- 1.6 and 89.7 +/- 7.3% in the D-IPM and S-IPM groups, respectively. Mean treatment costs in the 10-wk period were $463 and $482 per apartment in the D-IPM and S-IPM groups, respectively. Bed bug interceptors trapped an average of 219 +/- 135 bed bugs per apartment in 10 wk. The interceptors contributed to the IPM program efficacy and were much more effective than visual inspections in estimating bed bug numbers and determining the existence of bed bug infestations.
Two Linear Unmixing Algorithms to Recognize Targets Using Supervised Classification and Orthogonal Rotation in Airborne Hyperspectral Images (2012)

The goal of the paper is to detect pixels that contain targets of known spectra. The target can be present in a sub- or above pixel. Pixels without targets are classified as background pixels. Each pixel is treated via the content of its neighborhood. A pixel whose spectrum is different from its neighborhood is classified as a “suspicious point”. In each suspicious point there is a mix of target(s) and background. The main objective in a supervised detection (also called “target detection”) is to search for a specific given spectral material (target) in hyperspectral imaging (HSI) where the spectral signature of the target is known a priori from laboratory measurements. In addition, the fractional abundance of the target is computed. To achieve this we present two linear unmixing algorithms that recognize targets with known (given) spectral signatures. The CLUN is based on automatic feature extraction from the target’s spectrum. These features separate the target from the background. The ROTU algorithm is based on embedding the spectra space into a special space by random orthogonal transformation and on the statistical properties of the embedded result. Experimental results demonstrate that the targets’ locations were extracted correctly and these algorithms are robust and efficient.
4-Hydroxyisoleucine: experimental evidence of its insulinotropic and antidiabetic properties (1999)

We have recently shown in vitro that 4-hydroxyisoleucine (4-OH-Ile), an amino acid extracted from fenugreek seeds, potentiates insulin secretion in a glucose-dependent manner. The present study was designed to investigate whether 4-OH-Ile could exert in vivo insulinotropic and antidiabetic properties. For this purpose, intravenous or oral glucose tolerance tests (IVGTTs and OGTTs, respectively) were performed not only in normal animals but also in a type II diabetes rat model. During IVGTT in normal rats or OGTT in normal dogs, 4-OH-Ile (18 mg/kg) improved glucose tolerance. The lactonic form of 4-OH-Ile was ineffective in normal rats. In non-insulin-dependent diabetic (NIDD) rats, a single intravenous administration of 4-OH-Ile (50 mg/kg) partially restored glucose-induced insulin response without affecting glucose tolerance; a 6-day subchronic administration of 4-OH-Ile (50 mg/kg, daily) reduced basal hyperglycemia, decreased basal insulinemia, and slightly, but significantly, improved glucose tolerance. In vitro, 4-OH-Ile (200 microM) potentiated glucose (16.7 mM)-induced insulin release from NIDD rat-isolated islets. So, the antidiabetic effects of 4-OH-Ile on NIDD rats result, at least in part, from a direct pancreatic B cell stimulation.
COMP-Ang1: A designed angiopoietin-1 variant with nonleaky angiogenic activity (2004)

Angiopoietin-1 (Ang1) has potential therapeutic applications in inducing angiogenesis, enhancing endothelial cell survival, and preventing vascular leakage. However, production of Ang1 is hindered by aggregation and insolubility resulting from disulfide-linked higher-order structures. Here, by replacing the N-terminal portion of Ang1 with the short coiled-coil domain of cartilage oligomeric matrix protein (COMP), we have generated a soluble, stable, and potent Ang1 variant, COMP-Ang1. This variant is more potent than native Ang1 in phosphorylating the tyrosine kinase with Ig and epidermal growth factor homology domain 2 (Tie2) receptor and Akt in primary cultured endothelial cells, enhancing angiogenesis in vitro and increasing adult angiogenesis in vivo. Thus, COMP-Ang1 is an effective alternative to native Ang1 for therapeutic angiogenesis in vivo.
Measuring Sleep Habits Without Using a Diary: The Sleep Timing Questionnaire (2003)

The STQ may be a reliable valid measure of sleep timing that could provide a time-efficient alternative to traditional sleep diaries.
Oxygen Radical Absorbing Capacity of Phenolics in Blueberries, Cranberries, Chokeberries, and Lingonberries (2002)

The antioxidant activity of phenolics in fruits of blueberry (Vaccinium corymbosum cv. Sierra), cranberry (Vaccinium macrocarpon cv. Ben Lear), wild chokeberry (Aronia melanocarpa), and lingonberry (Vaccinium vitis-idaea cv. Amberland) was determined in this study. The phenolic constituents and contents among the different berries varied considerably. Anthocyanins were found to be the main components in all these berries. Chlorogenic acid in blueberry, quercetin glycosides in cranberry and lingonberry, and caffeic acid and its derivative in chokeberry were also present in relatively high concentrations. Chlorogenic acid, peonidin 3-galactoside, cyanidin 3-galactoside, and cyanidin 3-galactoside were the most important antioxidants in blueberry, cranberry, wild chokeberry, and lingonberry, respectively. The contribution of individual phenolics to the total antioxidant capacity was generally dependent on their structure and content in the berries. Phenolics such as quercetin and cyanidin, with 3',4'-dihydroxy substituents in the B ring and conjugation between the A and B rings, had highly effective radical scavenging structures in blueberries, cranberries, chokeberries, and lingonberries. Phenolic acids such as caffeic acid also showed high antioxidant activity, probably due to its dihydroxylation in the 3,4 positions as hydrogen donors.
Prevention of Shigellosis by a Salmonella typhi-Shigella sonnei Bivalent Vaccine (1987)

We genetically modified attenuated Salmonella typhi strain Ty21a to express the form I O polysaccharide antigen of Shigella sonnei. Three doses of this bivalent, live oral vaccine strain (1-8 X 10(9) organisms/dose) were given to young adults who, along with unvaccinated controls, were challenged one month later with pathogenic S. sonnei. The vaccinees had 40% protection against diarrhea and 56% against Hematest-positive diarrhea. Two of three vaccine lots provided higher levels of protection (53% against diarrhea and 71% against Hematest-positive diarrhea), but the third lot, prepared for a large-scale field trial, demonstrated no protective efficacy. Vaccinees had serum and local intestinal immune responses to S. sonnei lipopolysaccharide, and the presence of specific serum IgA or IgG antibody before challenge with pathogenic S. sonnei was correlated with protection from illness. Some lots of this bivalent vaccine strain provide significant protection against S. sonnei disease, but the problem of lot-to-lot variability must be overcome.
High-Accuracy Analog Measurements via Interpolated FFT (1979)

By use of an interpolated fast-Fourier-transform (FFT) algorithms are developed for multiparameter measurements upon periodic signals. Eight pertinent measurements, such as fundamental frequency, phase, and amplitude, are made with enhanced accuracy compared to existing algorithms, including tapered-window-FFT algorithms. For the more general case of nonharmonic multitone signals also the method is shown to yield exact amplitudes and phases if the tone frequencies are known beforehand. These measurements are useful in a variety of applications ranging from analog testing of printed-circuit boards to measurement of Doppler signals in radar detection.
Biogenesis of Peroxisomes (1985)

Cells organize many of their biochemical reactions in non-membrane compartments. Recent evidence has shown that many of these compartments are liquids that form by phase separation from the cytoplasm. Here we discuss the basic physical concepts necessary ...Read More
Strategies for achieving high-level expression of genes in Escherichia coli (1996)

Progress in our understanding of several biological processes promises to broaden the usefulness of Escherichia coli as a tool for gene expression. There is an expanding choice of tightly regulated prokaryotic promoters suitable for achieving high-level gene expression. New host strains facilitate the formation of disulfide bonds in the reducing environment of the cytoplasm and offer higher protein yields by minimizing proteolytic degradation. Insights into the process of protein translocation across the bacterial membranes may eventually make it possible to achieve robust secretion of specific proteins into the culture medium. Studies involving molecular chaperones have shown that in specific cases, chaperones can be very effective for improved protein folding, solubility, and membrane transport. Negative results derived from such studies are also instructive in formulating different strategies. The remarkable increase in the availability of fusion partners offers a wide range of tools for improved protein folding, solubility, protection from proteases, yield, and secretion into the culture medium, as well as for detection and purification of recombinant proteins. Codon usage is known to present a potential impediment to high-level gene expression in E. coli. Although we still do not understand all the rules governing this phenomenon, it is apparent that "rare" codons, depending on their frequency and context, can have an adverse effect on protein levels. Usually, this problem can be alleviated by modification of the relevant codons or by coexpression of the cognate tRNA genes. Finally, the elucidation of specific determinants of protein degradation, a plethora of protease-deficient host strains, and methods to stabilize proteins afford new strategies to minimize proteolytic susceptibility of recombinant proteins in E. coli.
p27Kip1 is an inducer of intestinal epithelial cell differentiation (2000)

Constant renewal of the intestinal epithelium is a highly coordinated process that has been subject to intense investigation, but its regulatory mechanisms are still essentially unknown. In this study, we have demonstrated that forced expression of the cyclin-dependent kinase inhibitors (CKIs) p27(Kip1) and p21(Cip1/WAF1) in human intestinal epithelial cells led to expression of differentiation markers at both the mRNA and protein levels. Cell differentiation was temporally dissociated from inhibition of retinoblastoma protein phosphorylation and growth arrest, already established 1 day after infection with recombinant adenoviruses. p27(Kip1) proved significantly more efficient than p21(Cip1/WAF1) in induction of cell differentiation. In contrast, forced expression of p16(INK4a) resulted in growth arrest without induction of differentiation markers. These results implicate both p27(Kip1) and p21(Cip1/WAF1) in the differentiation-timing process, but p21(Cip1/WAF1) may act indirectly by increasing p27(Kip1) levels. These results also suggest that induction of intestinal epithelial cell differentiation by CKIs is not related to their effects on the cell cycle and may involve interactions with cellular components other than cyclins and cyclin-dependent kinases.
Amphiphilic ruthenium benzylidene metathesis catalyst with PEG‐substituted pyridine ligands (2005)

An amphiphilic ruthenium benzylidene metathesis catalyst 3 was prepared using poly(ethylene glycol) (PEG)-substituted pyridine ligands. This new catalyst is found to effectively polymerize cyclic olefins both in organic solvents and in water, demonstrating a high level of versatility and providing potential for new future studies in aqueous-based ROMP and other metathesis chemistries. [A color version of the adjacent figure can be viewed in the online issue, which is available at www.interscience.wiley.com.]
The vinyl chloride DNA derivative N2,3-ethenoguanine produces G----A transitions in Escherichia coli. (1991)

Vinyl chloride is a known human and rodent carcinogen that forms several cyclic base derivatives in DNA. The mutagenic potential of these derivatives has been examined in vitro but not in vivo. One of these derivatives, N2,3-ethenoguanine (epsilon G), is known to base pair with both cytosine and thymine during in vitro DNA synthesis, which would result in G----A transitions. To determine the base pairing specificity of this labile guanine derivative in Escherichia coli, we have developed a genetic reversion assay for guanine derivatives. The assay utilizes DNA polymerase-mediated analogue insertion into a bacteriophage vector, M13G*1, which detects all single-base substitutions at position 141 of the lacZ alpha gene by change in plaque color. After the insertion of a single epsilon G opposite the template cytosine at position 141 by use of epsilon dGTP and DNA polymerase and further extension with all four normal dNTPs, the DNA was transfected into E. coli. Transfection of M13G*1 containing epsilon G at the target site yielded 135 mutants among 26,500 plaques, 134 of which represented G----A transitions. The uncorrected mutation frequency was 0.5%, as compared with the control value, approximately 0.02%; when corrected for epsilon G content and penetrance, the calculated mutagenic potential of epsilon G (mutations/analogue) was about 13%. We thus conclude that epsilon G specifically induces G----A transitions during DNA replication in E. coli. The M13G*1 assay may permit the testing of other labile guanine derivatives not otherwise amenable to mutagenesis studies.
Mechanisms underlying development of spatially distributed chronic pain (fibromyalgia) (2006)

Chronic fibromyalgia (FM) pain is prevalent (estimated as high as 13%), predominantly affects women, and is associated with a variety of focal pain conditions. Ongoing FM pain is referred to deep tissues and is described as widespread but usually is maximally located within a restricted region such as the shoulders. Palpation of deep tissues reveals an enhanced nociceptive sensitivity that is not restricted to regions of clinical pain. Similarly, psychophysical testing reveals allodynia and hyperalgesia for cutaneous stimulation at locations beyond regions of clinical pain referral. The combination of widely distributed clinical pain and generalized hypersensitivity is highly disabling, but no satisfactory treatment is regularly prescribed. A thorough understanding of mechanisms will likely be required to develop and document adequate therapies. The generalized hypersensitivity associated with FM has focused considerable interest on central (CNS) mechanisms for the disorder. These include central sensitization, central disinhibition and a dysfunctional hypothalamic-pituitary-adrenal (HPA) axis. However, the central effects associated with FM can be produced by a peripheral source of pain. Chronic nociceptive input induces central sensitization, magnifying pain, and it activates the HPA and the sympathetic nervous system. Chronic sympathetic activation indirectly sensitizes peripheral nociceptors and sets up a vicious cycle. Thus, it appears that central mechanisms of FM pain are dependent on abnormal peripheral input(s) for development and maintenance of this condition. A substantial literature defines peripheral-CNS-peripheral interactions that are integral to FM pain. These reciprocal actions and related phenomena of relevance to FM pain are reviewed here, leading to suggestions for testing of therapeutic approaches.
Binaural processing model based on contralateral inhibition. I. Model structure (2001)

This article presents a quantitative binaural signal detection model which extends the monaural model described by Dau et al. [J. Acoust. Soc. Am. 99, 3615-3622 (1996)]. The model is divided into three stages. The first stage comprises peripheral preprocessing in the right and left monaural channels. The second stage is a binaural processor which produces a time-dependent internal representation of the binaurally presented stimuli. This stage is based on the Jeffress delay line extended with tapped attenuator lines. Through this extension, the internal representation codes both interaural time and intensity differences. In contrast to most present-day models, which are based on excitatory-excitatory interaction, the binaural interaction in the present model is based on contralateral inhibition of ipsilateral signals. The last stage, a central processor, extracts a decision variable that can be used to detect the presence of a signal in a detection task, but could also derive information about the position and the compactness of a sound source. In two accompanying articles, the model predictions are compared with data obtained with human observers in a great variety of experimental conditions.