gebhart/patrepeval huggingface dataset:
Amylin activates glycogen phosphorylase in the isolated soleus muscle of the rat (1991)

The pancreatic beta-cell hormone amylin acts in isolated rat skeletal muscle to decrease insulin-stimulated incorporation of glucose into glycogen. It also increases blood levels of lactate and glucose in fasted rats in vivo. However, it remained uncertain whether amylin exerts direct effects to stimulate muscle glycogenolysis. We now report that amylin caused a dose-dependent increase in activity of muscle glycogen phosphorylase in isolated rat soleus muscle by stimulating phosphorylase a. Insulin inhibited amylin-stimulated activation of phosphorylase. Effects of amylin to stimulate muscle glycogenolysis are consistent with observed effects of amylin in vivo and could be a major mechanism whereby amylin modulates carbohydrate metabolism.
Q -compensated least-squares reverse time migration using low-rank one-step wave extrapolation (2016)

ABSTRACT Attenuation of seismic waves needs to be taken into account to improve the accuracy of seismic imaging. In viscoacoustic media, reverse time migration (RTM) can be performed with Q-compensation, which is also known as Q-RTM. Least-squares RTM (LSRTM) has also been shown to be able to compensate for attenuation through linearized inversion. However, seismic attenuation may significantly slow down the convergence rate of the least-squares iterative inversion process without proper preconditioning. We have found that incorporating attenuation compensation into LSRTM can improve the speed of convergence in attenuating media, obtaining high-quality images within the first few iterations. Based on the low-rank one-step seismic modeling operator in viscoacoustic media, we have derived its adjoint operator using nonstationary filtering theory. The proposed forward and adjoint operators can be efficiently applied to propagate viscoacoustic waves and to implement attenuation compensation. Recognizing that, in viscoacoustic media, the wave-equation Hessian may become ill-conditioned, we propose to precondition LSRTM with Q-compensated RTM. Numerical examples showed that the preconditioned Q-LSRTM method has a significantly faster convergence rate than LSRTM and thus is preferable for practical applications.
Cholesterol in high-density lipoprotein: use of Mg2+/dextran sulfate in its enzymic measurement. (1978)

We describe a method for measuring high-density lipoprotein cholesterol. MgCl2 and dextran sulfate are used to precipitate all low-density and very-low-density lipoproteins. The supernate contains only high-density lipoproteins, the cholesterol concentration of which is estimated by an enzymic method, with a discrete analyzer (Abbott Bichromatic Analyzer). Concentration and instrument response are linearly related to 50 mg/liter. The precision of the method is excellent in the range of clinical interest (100 to 1000 mg of cholesterol per liter). The precision and efficiency of the precipitation are shown at various concentrations of high-density lipoprotein cholesterol. The method was compared to that of two laboratories in the Cooperative Lipoprotein Phenotyping Study group by testing a number of split samples, and agreement was good.
Microbial Iron Compounds (1981)

The Hippo pathway was initially discovered in Drosophila melanogaster as a key regulator of tissue growth. It is an evolutionarily conserved signaling cascade regulating numerous biological processes, including cell growth and fate decision, organ size ...Read More
Mechanisms and management of congenital and acquired long QT syndromes. (1996)

The long QT syndromes can be divided into congenital and acquired forms. Early afterdepolarizations have been identified as triggering mechanisms for both congenital and acquired QT syndromes but reentry may play a role in the perpetuation of the ventricular tachycardia, torsade de pointes. Studies of the ionic mechanisms of early afterdepolarizations have implicated L-type Ca2+ current, persisting Na+ current, and Na+:Ca2+ exchange current related to Ca2+ loading. Different ionic mechanisms may be operative in early afterdepolarizations occuring at different levels of membrane potential in the setting of prolonged repolarization by blocking K+ currents or maintaining non-inactivating Ca2+ or Na+ currents or in early afterdepolarizations due to adrenergic stimulation. In the congenital long QT syndromes, two mutations have recently been discovered in the genes SCN5A and HERG which encode respectively the Na+ channel and a K+ channel conducting the current IKr. It is postulated that the SCN5A mutation leads to a problem with inactivation of Na+ current. In the case of the HERG mutation, the K+ current appears to be diminished. In the case of the acquired long QT syndromes, the therapeutic challenge is to maintain the prolonged repolarization but to interrupt the arrhythmogenic cascade. Current therapies for torsades de pointes include speeding of the heart rate, which enhances K+ current, and Ca2+ blockers or Mg, also a Ca2+ blocker. In the congenital long QT syndromes, therapy in the past has been directed toward reducting adrenergic influence either by betablockade or left cardiac sympathectomy. Recent discoveries open other possibilities such as Na+ channel blockers and methods to increase IKr such as elevation of extracellular K+.
Nuclear factor of activated T cells and early growth response-1 cooperate to mediate tissue factor gene induction by vascular endothelial growth factor in endothelial cells (2007)

Based on the finding that tissue factor belongs to a group of genes upregulated in endothelial cells by VEGF, but not by EGF, we investigated signals selectively triggered by VEGF. Whereas the transcription factor early growth response (EGR)-1, which has previously been shown by us to be essentially involved in tissue factor gene regulation, was similarly induced by both factors, one major difference between VEGF and EGF signaling was the activation of the Ca(++)-mediated calcineurin/nuclear factor of activated T cells (NFAT) pathway by VEGF. Consistent with the importance of this pathway for tissue factor induction, treatment of endothelial cells with the Ca(++) chelator BAPTA-AM, as well as the calcineurin inhibitor cyclosporin A, partially inhibited VEGF-induced tissue factor upregulation. Furthermore, tissue factor reporter gene assays revealed a synergistic cooperation of NFAT and EGR-1 in the induction of the TF promoter, and a physical interaction between the two factors was indicated by co-immunoprecipitation assays. Another gene upregulated by VEGF predominantly via NFAT, which is not induced by EGF, is the DSCR-1 gene. The calcineurin inhibitor DSCR-1 seems to be induced by VEGF in a negative feed-back loop to limit NFAT activation. When we tested adenoviral overexpression of DSCR-1, VEGF-mediated induction of tissue factor mRNA was reduced, and complete suppression could be achieved by a combination of viruses expressing DSCR-1 and NAB2, a corepressor of EGR-1. These findings support that both, NFAT and EGR-1, are required for tissue factor upregulation in response to VEGF.
Current treatments for radiation retinopathy (2010)

RR is a common vision threatening complication following radiation therapy. The available therapeutic options are limited and show unsatisfactory results. Further large investigative studies are required for developing better therapeutic as well as preventive treatment strategies.
Human recombinant tissue factor, platelet-rich plasma, and tetracycilne induce a high-quality human bone graft: a 5-year survey. (2003)

The generalized use in implant dentistry, oral surgery, and orthopedics of such a protocol could facilitate the healing process as well as patient safety and surgeon comfort.
Function, Genetic Polymorphism, and Transcriptional Regulation of Human UDP-glucuronosyltransferase (UGT) 1A1 (2012)

Human UDP-glucuronosyltransferase (UGT) 1A1 is the enzyme that detoxifies neurotoxic bilirubin by conjugating it with glucuronic acid. UGT1A1 also plays a critical role in the detoxification and excretion of endogenous and exogenous lipophilic compounds mainly in the liver and gastrointestinal tract. Impaired or reduced UGT1A1 activity causes unconjugated hyperbilirubinemia (Gilbert's syndrome and Crigler-Najjar syndrome) and side effects of drug treatment such as SN-38 (active metabolite of the anticancer drug irinotecan)-induced toxicity. Understanding the regulatory mechanism of human UGT1A1 expression is critical in treating patients with unconjugated hyperbilirubinemia and for effective drug treatment. We identified the distal enhancer module of the UGT1A1 gene and a single nucleotide polymorphism in it that significantly reduces the transcriptional activity associated with the manifestation of Gilbert's syndrome. This review describes the transcriptional regulation of the human UGT1A1 gene by transcription factors and their co-factors, the genetic polymorphism associated with reduced transcriptional activity, and the induction of UGT1A1 expression by non-genetic factors including environmental factors and its pharmacological and toxicological meaning.
Efficient Preparation of Large-Area Graphene Oxide Sheets for Transparent Conductive Films (2010)

Large-area sheets are highly desirable for fundamental research and technological applications of graphene. Here we introduce a modified chemical exfoliation technique to prepare large-area graphene oxide (GO) sheets. The maximum area of the GO sheets obtained can reach ∼40000 μm(2). We found that the GO area is strongly correlated with the C-O content of the graphite oxide, which enables the area of the synthesized GO sheets to be controlled. By simply changing oxidation conditions, GO sheets with an average area of ca. 100-300, ca. 1000-3000, and ∼7000 μm(2) were selectively synthesized. For transparent conductive film applications, thin GO films were fabricated by self-assembly on a liquid/air interface and reduced by HI acid. We found that the sheet resistance of the reduced GO (rGO) films decreases with increasing sheet area at the same transmittance because of the decrease in the number of intersheet tunneling barriers. The rGO film made from GO sheets with an average area of ∼7000 μm(2) shows a sheet resistance of 840 Ω/sq at 78% transmittance, which is much lower than that (19.1 kΩ/sq at 79% transmittance) of a rGO film made from small-area GO sheets of ca. 100-300 μm(2), and comparable to that of graphene films grown on Ni by chemical vapor deposition.
A rat CD4 mutant containing the gp120-binding site mediates human immunodeficiency virus type 1 infection. (1993)

CD4 is the primary receptor for the human immunodeficiency virus type 1 (HIV-1). Early mutational studies implicated a number of residues of CD4, centered in the region 41-59, in binding to gp120. However, further mutational analyses, together with studies using inhibitory antibodies or CD4-derived peptides, have suggested that other regions of CD4 are also involved in binding or postbinding events during infection. To resolve these ambiguities, we used rat CD4 mutants in which particular regions were replaced with the corresponding sequence of human CD4. We have previously shown that some of these are able to bind HIV-1 gp120, and here we test their ability to act as functional receptors. We find that the presence of human CD4 residues 33-62 is enough to confer efficient receptor function to rat CD4, and we conclude that it is unlikely that regions of CD4 outside this sequence are involved in specific interactions with HIV-1 during either infection or syncytium formation.
A VSWR-rugged silicon bipolar RF power amplifier (2005)

In this paper, the effect of emitter ballast on the ruggedness of RF power amplifiers is investigated. Silicon bipolar 1.8-GHz power amplifiers based on different ballasted transistors have been integrated and tested under load mismatch conditions. A ballasted device with 25-mV emitter voltage drop achieves the optimum trade-off between ruggedness and performance. The power amplifier based on this device is able to tolerate a 20:1 load standing-wave ratio up to a 5.8-V supply voltage. It delivers a 33.4-dBm saturated output power with 51% maximum power-added efficiency at a nominal 3.5-V supply voltage.
Design, testing, and applications of digital microfluidics-based biochips (2005)

Microfluidics-based biochips offer a promising platform for massively parallel DNA analysis, automated drug discovery, and real-time biomolecular recognition. The first part of this paper introduces readers to digital microfluidics technology. The second part describes a recent technique for the automated design and synthesis of biochips. A clinical diagnostic procedure, namely multiplexed in-vitro diagnostics on human physiological fluids, is used to illustrate the design approach. The third part of the embedded tutorial is focused on test issues. It is important to ensure high reliability and availability of biochips as they are increasingly deployed for safety-critical applications. The tutorial includes a discussion of fault models, catastrophic fault testing, and concurrent test issues.
Neurotrophins and Neurotrophin Receptors in Human Lung Cancer (2001)

The expression of neurotrophins (NTs) and related high- and low-affinity receptors was studied in surgical samples of histologically diagnosed human tumors of the lower respiratory tract. The experiment was conducted with 30 non-small cell lung cancer specimens and in eight small cell lung cancer specimens by Western blot analysis and immunohistochemistry to assess expression and distribution of NT and NT receptor proteins in tissues examined. Immunoblots of homogenates from human tumors displayed binding of anti-nerve growth factor (NGF), brain-derived neurotrophic factor (BDNF), and NT-3 antibodies as well as of anti-tyrosine-specific protein kinase (Trk) A, TrkB, and TrkC receptor antibodies, with similar migration characteristics than those displayed by human beta-NGF and proteins from rat brain. A specific immunoreactivity for NTs and NT receptors was demonstrated in vessel walls, stromal fibroblasts, immune cells, and sometimes within neoplastic cell bodies. Approximately 33% of bronchioloalveolar carcinomas exhibited a strong membrane NGF and TrkA immunoreactivity, whereas 46% adenocarcinomas expressed an intense TrkA immunoreactivity but a weak immunostaining for NGF within tumor cells. Moreover, squamous cell carcinomas developed an intense TrkA immunoreactivity only within stroma surrounding neoplastic cells. A faint BDNF and TrkB immunoreactivity was documented in adenocarcinomas, squamous cell carcinomas, and small cell lung cancers. NT-3 and its corresponding TrkC receptor were found in a small number of squamous cell carcinomas within large-size tumor cells. No expression of low-affinity p75 receptor protein was found in tumor cells. The detection of NTs and NT receptor proteins in tumors of the lower respiratory tract suggests that NTs may be involved in controlling growth and differentiation of human lung cancer and/or influencing tumor behavior.
Effect of food intake on the delivery of fluorescein as a model drug in colon delivery capsule after oral administration to beagle dogs (1996)

The effect of food on the release time of a model drug, fluorescein (FL), has been studied after oral administration to beagle dogs in colon delivery capsule in comparison to conventional gelatin capsule and enteric capsules. The dose of FL was 30 mg for each animal. After oral administration of each test preparation in fasted or postprandial condition (100 grams of commercial solid food was given at 30 min before drug administration), blood samples were collected and plasma FL concentrations were measured spectrofluorometrically. Pharmacokinetic analysis was performed with plasma FL concentration vs. time data and the following parameters were determined; Tmax (the time when plasma FL concentration reaches to its maximum concentration), Cmax (peak plasma FL concentration), Tlag (the time when FL appeared at first into the systemic circulation), AUC (area under the plasma FL concentration vs. Time curve) and MRT (mean residence time). For gelatin capsule, mean Tmax appeared at 0.83 +/- 0.33 (S.E.) h after administration and MRT was 2.67 +/- 0.21 h in fasted condition. By feeding, Tmax and MRT increased to 1.50 +/- 0.76 h and 3.09 +/- 0.49 h. For two enteric HPMCP and Eudragit S capsules, MRT were 2.90 +/- 0.48 h and 5.24 +/- 0.32 h in fasted condition, and 11.30 +/- 1.10 h and 12.83 +/- 0.34 h in postprandial condition, respectively. Tlag also increased by postprandial administration. As colon delivery capsule, time-controlled release capsule (TCC) and two types of intestinal inner pressure-controlled release capsules (PCC) (#1 is a separate type and #2 is a seamless one) were tested. MRT of TCC was 4.76 +/- 0.29 h and 6.43 +/- 0.66 h in fasted and postprandial conditions, respectively. This capsule did not receive the effect of food intake. For #1 PCC, MRTs were 5.32 +/- 0.22 h and 12.28 +/- 0.26 h in fasted and postprandial conditions, respectively. For #2 PCC, MRTs were 5.51 +/- 0.26 h and 13.36 +/- 0.84 h in fasted and postprandial conditions, respectively. In addition, the effect of two times feedings was studied with two PCCs and longer MRTs, 28.44 +/- 1.39 h and 26.32 +/- 1.64 h, were obtained. The release time of FL from PCCs increased by postprandial administration. As compared to the results on two enteric capsules, these PCCs are thought to disintegrate in the colon. However, TCC is thought to disintegrate in the stomach after postprandial administration.
Peroxisome proliferator-activated receptor gamma activation is required for maintenance of innate antimicrobial immunity in the colon (2010)

Crohn's disease (CD), a major form of human inflammatory bowel disease, is characterized by primary immunodeficiencies. The nuclear receptor peroxisome proliferator-activated receptor gamma (PPARgamma) is essential for intestinal homeostasis in response to both dietary- and microbiota-derived signals. Its role in host defense remains unknown, however. We show that PPARgamma functions as an antimicrobial factor by maintaining constitutive epithelial expression of a subset of beta-defensin in the colon, which includes mDefB10 in mice and DEFB1 in humans. Colonic mucosa of Ppargamma mutant animals shows defective killing of several major components of the intestinal microbiota, including Candida albicans, Bacteroides fragilis, Enterococcus faecalis, and Escherichia coli. Neutralization of the colicidal activity using an anti-mDefB10 blocking antibody was effective in a PPARgamma-dependent manner. A functional promoter variant that is required for DEFB1 expression confers strong protection against Crohn's colitis and ileocolitis (odds ratio, 0.559; P = 0.018). Consistently, colonic involvement in CD is specifically linked to reduced expression of DEFB1 independent of inflammation. These findings support the development of PPARgamma-targeting therapeutic and/or nutritional approaches to prevent colonic inflammation by restoring antimicrobial immunity in CD.
A method for high-sensitivity peptide sequencing using postsource decay matrix-assisted laser desorption ionization mass spectrometry (1999)

A method has been developed for de novo peptide sequencing using matrix-assisted laser desorption ionization mass spectrometry. This method will facilitate biological studies that require rapid determination of peptide or protein sequences, e.g., determination of posttranslational modifications, identification of active compounds isolated from combinatorial peptide libraries, and the selective identification of proteins as part of proteome studies. The method involves fast, one-step addition of a sulfonic acid group to the N terminus of tryptic peptides followed by acquisition of postsource decay (PSD) fragment ion spectra. The derivatives are designed to promote efficient charge site-initiated fragmentation of the backbone amide bonds and to selectively enhance the detection of a single fragment ion series that contains the C terminus of the molecule (y-ions). The overall method has been applied to pmol quantities of peptides. The resulting PSD fragment ion spectra often exhibit uninterrupted sequences of 20 or more amino acid residues. However, fragmentation efficiency decreases considerably at amide bonds on the C-terminal side of Pro. The spectra are simple enough that de novo sequence tagging is routine. The technique has been successfully applied to peptide mixtures, to high-mass peptides (up to 3,600 Da) and to the unambiguous identification of proteins isolated from two-dimensional gel electrophoresis. The PSD spectra of these derivatized peptides often allow far more selective protein sequence database searches than those obtained from the spectra of native peptides.
Secondary structure effects on DNA hybridization kinetics: a solution versus surface comparison (2006)

The hybridization kinetics for a series of designed 25mer probe-target pairs having varying degrees of secondary structure have been measured by UV absorbance and surface plasmon resonance (SPR) spectroscopy in solution and on the surface, respectively. Kinetic rate constants derived from the resultant data decrease with increasing probe and target secondary structure similarly in both solution and surface environments. Specifically, addition of three intramolecular base pairs in the probe and target structure slow hybridization by a factor of two. For individual strands containing four or more intramolecular base pairs, hybridization cannot be described by a traditional two-state model in solution-phase nor on the surface. Surface hybridization rates are also 20- to 40-fold slower than solution-phase rates for identical sequences and conditions. These quantitative findings may have implications for the design of better biosensors, particularly those using probes with deliberate secondary structure.
BINOL‐Fused Maleimides – A New Class of C2‐Symmetric Chiral Imides (2013)

Abstract The first synthesis of BINOL‐fused maleimides has been developed. This new chiral scaffold is easily accessible from various BINOL analogues and 2,3‐dihalomaleimide derivatives under basic conditions. It can be easily functionalized on the BINOL moiety and is an entry towards promising new classes of chiral organocatalysts and ligands.
Genetic Transformation of Wheat Mediated by Agrobacterium tumefaciens (1997)

A rapid Agrobacterium tumefaciens-mediated transformation system for wheat was developed using freshly isolated immature embryos, precultured immature embryos, and embryogenic calli as explants. The explants were inoculated with a disarmed A. tumefaciens strain C58 (ABI) harboring the binary vector pMON18365 containing the [beta]-glucuronidase gene with an intron, and a selectable marker, the neomycin phosphotransferase II gene. Various factors were found to influence the transfer-DNA delivery efficiency, such as explant tissue and surfactants present in the inoculation medium. The inoculated immature embryos or embryogenic calli were selected on G418-containing media. Transgenic plants were regenerated from all three types of explants. The total time required from inoculation to the establishment of plants in soil was 2.5 to 3 months. So far, more than 100 transgenic events have been produced. Almost all transformants were morphologically normal. Stable integration, expression, and inheritance of the transgenes were confirmed by molecular and genetic analysis. One to five copies of the transgene were integrated into the wheat genome without rearrangement. Approximately 35% of the transgenic plants received a single copy of the transgenes based on Southern analysis of 26 events. Transgenes in T1 progeny segregated in a Mendelian fashion in most of the transgenic plants.