gebhart/patrepeval huggingface dataset:
Metabolic Adaptation of Neutrophils in Cystic Fibrosis Airways Involves Distinct Shifts in Nutrient Transporter Expression (2013)

Inflammatory conditions can profoundly alter human neutrophils, a leukocyte subset generally viewed as terminally differentiated and catabolic. In cystic fibrosis (CF) patients, neutrophils recruited to CF airways show active exocytosis and sustained phosphorylation of prosurvival, metabolic pathways. Because the CF airway lumen is also characterized by high levels of free glucose and amino acids, we compared surface expression of Glut1 (glucose) and ASCT2 (neutral amino acids) transporters, as well as that of PiT1 and PiT2 (inorganic phosphate transporters), in blood and airway neutrophils, using specific retroviral envelope-derived ligands. Neither nutrient transporter expression nor glucose uptake was altered on blood neutrophils from CF patients compared with healthy controls. Notably, however, airway neutrophils of CF patients had higher levels of PiT1 and Glut1 and increased glucose uptake compared with their blood counterparts. Based on primary granule exocytosis and scatter profiles, CF airway neutrophils could be divided into two subsets, with one of the subsets characterized by more salient increases in Glut1, ASCT2, PiT1, and PiT2 expression. Moreover, in vitro exocytosis assays of blood neutrophils suggest that surface nutrient transporter expression is not directly associated with primary (or secondary) granule exocytosis. Although expression of nutrient transporters on CF blood or airway neutrophils was not altered by genotype, age, gender, or Pseudomonas aeruginosa infection, oral steroid treatment decreased Glut1 and PiT2 levels in blood neutrophils. Thus, neutrophils recruited from blood into the CF airway lumen display augmented cell surface nutrient transporter expression and glucose uptake, consistent with metabolic adaptation.
The Long-Term Results of Using Low-Concentration Atropine Eye Drops for Controlling Myopia Progression in Schoolchildren (2011)

The results of this study demonstrate that long-term and regular instillation of LC atropine eye drops is effective for controlling myopia progression and provides a possible strategy for an initial myopia regimen.
New properties of sigma-delta modulators with DC inputs (1992)

New properties of single- and double-loop sigma-delta modulators with constant inputs are derived by exploiting the inherent structure os the output sequences or codewords that the modulators are capable of producing. Upper bounds are derived on the number of N-bit codewords for the single- and double-loop modulators. Analytical lower bounds on the mean squared error (MSE) obtainable by any decoder, linear or nonlinear, in approximating the constant input are also derived. Optimal nonlinear decoders for constant inputs based on a table lookup approach which operates directly on the nonuniform quantization intervals are considered. Using simulations is is found that the optimal nonlinear decoders perform better than linear decoders, by about 3 and 20 dB for the single- and double-loop modulators, respectively. A cascade structure specifically for constant inputs is introduced, and its corresponding decoding algorithm is derived. It is shown that for a fixed latency, the MSE performance of the cascade structure is 12 dB superior, and its throughput is twice that of the conventional two-stage MASH modulator.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>
Fabrication of Chitosan/Silk Fibroin Composite Nanofibers for Wound-dressing Applications (2010)

Chitosan, a naturally occurring polysaccharide with abundant resources, has been extensively exploited for various biomedical applications, typically as wound dressings owing to its unique biocompatibility, good biodegradability and excellent antibacterial properties. In this work, composite nanofibrous membranes of chitosan (CS) and silk fibroin (SF) were successfully fabricated by electrospinning. The morphology of electrospun blend nanofibers was observed by scanning electron microscopy (SEM) and the fiber diameters decreased with the increasing percentage of chitosan. Further, the mechanical test illustrated that the addition of silk fibroin enhanced the mechanical properties of CS/SF nanofibers. The antibacterial activities against Escherichia coli (Gram negative) and Staphylococcus aureus (Gram positive) were evaluated by the turbidity measurement method; and results suggest that the antibacterial effect of composite nanofibers varied on the type of bacteria. Furthermore, the biocompatibility of murine fibroblast on as-prepared nanofibrous membranes was investigated by hematoxylin and eosin (H&E) staining and MTT assays in vitro, and the membranes were found to promote the cell attachment and proliferation. These results suggest that as-prepared chitosan/silk fibroin (CS/SF) composite nanofibrous membranes could be a promising candidate for wound healing applications.
New features of progressive multifocal leukoencephalopathy in the era of highly active antiretroviral therapy and natalizumab (2005)

Over the past three decades, progressive multifocal leukoencephalopathy (PML) evolved from being a clinical rarity to become an important cause of neurological complications in acquired immunodeficiency syndrome (AIDS) patients. Recently this disease unexpectedly occurred in patients receiving the novel immunomodulatory medication natalizumab. These changes in the epidemiology of PML also brought new questions with regard to the pathogenesis of this disease. The authors review the current challenges in the diagnosis and management of patients with PML, based on the recent advances in the understanding of the JC virus biology and discuss potential methods to monitor disease evolution and predict outcome.
Construction of an eae deletion mutant of enteropathogenic Escherichia coli by using a positive-selection suicide vector (1991)

The ability to attach to epithelial cells, efface the microvillus surface, and disrupt the underlying cytoskeleton is characteristic of enteropathogenic Escherichia coli (EPEC). Recently, eae, a gene necessary for this phenomenon, was described (A. E. Jerse, J. Yu, B. D. Tall, and J. B. Kaper, Proc. Natl. Acad. Sci. USA 87:7839-7843, 1990). We report the use of a novel suicide vector containing the pir-dependent R6K replicon and the sacB gene of Bacillus subtilis to construct an eae deletion mutant of EPEC. This system enables positive selection for the loss of vector sequences. The resulting mutant, CVD206, is indistinguishable from the wild-type strain except for the loss of a 94-kDa outer membrane protein and attaching and effacing ability. Both the 94-kDa outer membrane protein and attaching and effacing ability are restored upon reintroduction of the eae gene on a plasmid. These results confirm the role of the eae gene in the attaching and effacing activity of EPEC and establish the utility of a new system for the construction of deletion mutations.
Atrial Fibrillation and Heart Failure — Five More Years (2004)

Heart failure is often complicated by atrial fibrillation, and atrial fibrillation can exacerbate and in some cases cause heart failure. Adverse effects of atrial fibrillation include a loss of atrial contribution to ventricular filling, a nonphysiologic heart-rate response, irregular periods of ventricular filling, and an increased risk of thromboembolism. In an editorial in the Journal five years ago,1 we observed that atrial fibrillation was associated with an adverse prognosis in several studies of heart failure, but it was not clear whether it directly increased disease progression and mortality or was only a marker for the severity of heart failure. Therapy . . .
Analysis of T cell responses to poly‐L(GluLys) at the clonal level. I. Presence of responsive clones in nonresponder mice (1987)

Abstract The synthetic random copolymer of L‐glutamic acid and L‐lysine (GL) is weakly or nonimmunogenic in all inbred strains of mice. Theories proposed to account for nonresponsiveness to GL include a deficient T cell repertoire, failure of antigenpresenting cells to present the antigen and/or the presence of suppressor cells. In this study we examine mechanisms for nonresponsiveness to GL. We demonstrate the existence of GL‐reactive T cells which can be isolated with a relatively high frequency. These clones, which were derived following immunization of H‐2 d mice with poly(LGluLLysLTyr), also respond to several GL‐containing polypeptides including the terpolymers of GL with phenylalanine, alanine (GLA) or leucine. Although recognition of GLA by heterogeneous T cell populations usually occurs in association with I‐A determinants, these clones recognize GLA, as well as the other GL‐containing polymers, in association with I‐E determinants. Analysis of the antigen and alloreactivity patterns of these clones indicated that they expressed distinct antigen receptors. These studies imply that the T cell repertoire of “nonresponder” H‐2 d mice includes multiple GL‐reactive T cell clones and that the antigen‐presenting cells of these mice are effective in processing and presenting GL.
Bile acid nuclear receptor FXR and digestive system diseases (2015)

Bile acids (BAs) are not only digestive surfactants but also important cell signaling molecules, which stimulate several signaling pathways to regulate some important biological processes. The bile-acid-activated nuclear receptor, farnesoid X receptor (FXR), plays a pivotal role in regulating bile acid, lipid and glucose homeostasis as well as in regulating the inflammatory responses, barrier function and prevention of bacterial translocation in the intestinal tract. As expected, FXR is involved in the pathophysiology of a wide range of diseases of gastrointestinal tract, including inflammatory bowel disease, colorectal cancer and type 2 diabetes. In this review, we discuss current knowledge of the roles of FXR in physiology of the digestive system and the related diseases. Better understanding of the roles of FXR in digestive system will accelerate the development of FXR ligands/modulators for the treatment of digestive system diseases.
Unexpected Modes of PDZ Domain Scaffolding Revealed by Structure of nNOS-Syntrophin Complex (1999)

The PDZ protein interaction domain of neuronal nitric oxide synthase (nNOS) can heterodimerize with the PDZ domains of postsynaptic density protein 95 and syntrophin through interactions that are not mediated by recognition of a typical carboxyl-terminal motif. The nNOS-syntrophin PDZ complex structure revealed that the domains interact in an unusual linear head-to-tail arrangement. The nNOS PDZ domain has two opposite interaction surfaces-one face has the canonical peptide binding groove, whereas the other has a beta-hairpin "finger." This nNOS beta finger docks in the syntrophin peptide binding groove, mimicking a peptide ligand, except that a sharp beta turn replaces the normally required carboxyl terminus. This structure explains how PDZ domains can participate in diverse interaction modes to assemble protein networks.
MODIFIED OLIGONUCLEOTIDES: Synthesis and Strategy for Users (1998)

Synthetic oligonucleotide analogs have greatly aided our understanding of several biochemical processes. Efficient solid-phase and enzyme-assisted synthetic methods and the availability of modified base analogs have added to the utility of such oligonucleotides. In this review, we discuss the applications of synthetic oligonucleotides that contain backbone, base, and sugar modifications to investigate the mechanism and stereochemical aspects of biochemical reactions. We also discuss interference mapping of nucleic acid-protein interactions; spectroscopic analysis of biochemical reactions and nucleic acid structures; and nucleic acid cross-linking studies. The automation of oligonucleotide synthesis, the development of versatile phosphoramidite reagents, and efficient scale-up have expanded the application of modified oligonucleotides to diverse areas of fundamental and applied biological research. Numerous reports have covered oligonucleotides for which modifications have been made of the phosphodiester backbone, of the purine and pyrimidine heterocyclic bases, and of the sugar moiety; these modifications serve as structural and mechanistic probes. In this chapter, we review the range, scope, and practical utility of such chemically modified oligonucleotides. Because of space limitations, we discuss only those oligonucleotides that contain phosphate and phosphate analogs as internucleotidic linkages.
Effect of treatment delay on disease severity and need for resuscitation in porcine fecal peritonitis (2012)

Increasing the delay between sepsis initiation and resuscitation increases disease severity, need for resuscitation, and sepsis-associated brain mitochondrial dysfunction. Our results support the concept of a critical window of opportunity in sepsis resuscitation.
Bile Acids: The Good, the Bad, and the Ugly (1999)

Bile acids, amphipathic end products of cholesterol metabolism, are "good" in the infant because they enhance lipid absorption and thereby promote growth. Bile acids also induce bile flow and biliary lipid secretion. The enterohepatic circulation of bile acids is "bad" in the adult because it downregulates hepatocyte low-density lipoprotein receptor activity and thereby elevates plasma cholesterol levels. Defects in bile acid metabolism such as impaired biosynthesis or transport are "ugly" because they cause morbidity and death. New approaches for treating these defects are being developed.
Alkylation with Non-ketonic Mannich Bases. Aminothiazoles and Pyrrole (1948)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTAlkylation with Non-ketonic Mannich Bases. Aminothiazoles and PyrroleNoel F. AlbertsonCite this: J. Am. Chem. Soc. 1948, 70, 2, 669–670Publication Date (Print):February 1, 1948Publication History Published online1 May 2002Published inissue 1 February 1948https://pubs.acs.org/doi/10.1021/ja01182a069https://doi.org/10.1021/ja01182a069research-articleACS PublicationsRequest reuse permissionsArticle Views345Altmetric-Citations27LEARN 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
The V122I cardiomyopathy variant of transthyretin increases the velocity of rate-limiting tetramer dissociation, resulting in accelerated amyloidosis (2001)

The transthyretin (TTR) amyloid diseases are of keen interest, because there are >80 mutations that cause, and a few mutations that suppress, disease. The V122I variant is the most common amyloidogenic mutation worldwide, producing familial amyloidotic cardiomyopathy primarily in individuals of African descent. The substitution shifts the tetramer-folded monomer equilibrium toward monomer (lowers tetramer stability) and lowers the kinetic barrier associated with rate-limiting tetramer dissociation (pH 7; relative to wild-type TTR) required for amyloid fibril formation. Fibril formation is also accelerated because the folded monomer resulting from the tetramer-folded monomer equilibrium rapidly undergoes partial denaturation and self-assembles into amyloid (in vitro) when subjected to a mild denaturation stress (e.g., pH 4.8). Incorporation of the V122I mutation into a folded monomeric variant of transthyretin reveals that this mutation does not destabilize the tertiary structure or alter the rate of amyloidogenesis relative to the wild-type monomer. The increase in the velocity of rate-limiting tetramer dissociation coupled with the lowered tetramer stability (increasing the mol fraction of folded monomer present at equilibrium) may explain why V122I confers an apparent absolute anatomic risk for cardiac amyloid deposition.
Mutant Glycyl-tRNA Synthetase (Gars) Ameliorates SOD1G93A Motor Neuron Degeneration Phenotype but Has Little Affect on Loa Dynein Heavy Chain Mutant Mice (2009)

These findings raise intriguing possibilities for the study of pathogenetic mechanisms in all three mouse mutant strains.
Structural Modifications of Fluoro-alkyl S-Triazines and Their Lubricant Properties (1971)

A new class of fluids has been developed which show great potential as high temperature lubricants and energy transfer fluids for future aerospace systems. The chemical synthesis of this class of materials, the s-triazines, is briefly described and the characterization and evaluation data are presented. These fluids show excellent thermal and oxidative stability up to 650 F and are nonflammable. They exhibit improved low temperature properties over the polyphenyl ethers and are not corrosive at elevated temperatures.
Correlation between cerebral blood flow and histologic changes in a new rat model of middle cerebral artery occlusion. (1989)

We describe a new focal ischemia model consisting of unilateral middle cerebral artery occlusion with a silicone rubber cylinder attached to a nylon surgical thread inserted through the internal carotid artery in rats. Recirculation was accomplished by pulling the thread out of the artery. We evaluated the reliability of this model and studied the influence of reperfusion of the brain by measuring regional cerebral blood flow in 30 rats and by using conventional neuropathologic methods after different periods of occlusion in 48 rats. The anterior neocortex and the lateral part of the caudate putamen, which were supplied by the occluded middle cerebral artery, were the regions most frequently damaged. After 1 hour of occlusion in five rats, in the cortex supplied by the occluded artery mean +/- SD blood flow was 0.19 +/- 0.08 ml/g/min (approximately 15% of that in the corresponding region of five sham-operated control rats), and mild scattered ischemic cell change was observed. Three (n = 5) or six (n = 5) hours of occlusion reduced blood flow more severely and caused severe ischemic cell changes in the cortex supplied by the occluded artery in proportion to the duration of ischemia. Characteristically, in five rats subjected to 3 hours of occlusion followed by 3 hours of recirculation, blood flow was restored and spongy edematous change was observed in the cortex supplied by the recirculated artery. This change resulted in hypoperfusion of the neighboring cortical region surrounding the recirculated area. Our model should be useful in various investigations of the influence of reperfusion on focal ischemic brain injury.
Identification and activity of a phytotoxin produced byCalonectria ilicicola, the causal agent of soybean red crown rot (2011)

Abstract A phytotoxin isolated from Calonectria ilicicola, the causal agent of soybean red crown rot, was identified as PF1070A, a cyclic peptide consisting of four amino acids. This compound is known as an antitumour antibiotic and to induce synthesis of metallothionein in mouse Ltk- cells. We tested PF1070A against three soybean cultivars that differ in susceptibility to C. ilicicola; however, there was no significant difference among their responses to the toxin. We determined the amount of PF1070A produced by 17 isolates of C. ilicicola, and found that there was a strong positive correlation between virulence and PF1070A production. Together, these results suggest that the phytotoxin PF1070A has a role in the virulence of C. ilicicola.
Forced expression of cytidine deaminase confers resistance to cytosine arabinoside and gemcitabine. (1996)

Genes that confer cellular resistance to cytotoxic agents have potential applications both for marrow protection following cancer chemotherapy and as dominant selectable markers for the selection of genetically modified hematopoietic cell populations in vivo. Cytidine analogues, including cytosine arabinoside (Ara-C), 2',2'-difluorodeoxycytidine (gemcitabine), and other drugs represent a clinically important class of chemotherapeutic agents for which no drug resistance gene has yet been described. Studies were performed to determine whether forced expression of a gene encoding the enzyme cytidine deaminase can confer resistance to cytosine arabinoside (Ara-C) and gemcitabine in vitro. A pooled population of NIH3T3 cells overexpressing cytidine deaminase from a retroviral construct based on the LXSN-vector (LCDSN) demonstrated a 4.5-fold increased resistance to Ara-C based on the 50% inhibitory concentration (ID50) and a 3.7-fold increased resistance to Ara-C based on the 80% inhibitory concentration (ID80) relative to cells transduced with a control vector. In the hemopoietic cell line CCRF-CEM, the same retroviral construct conferred a 2.1-fold increased resistance to Ara-C by ID50 and a 3.0-fold increased resistance to Ara-C by ID80 relative to cells transduced with a control vector. CEM cells transduced with LCDSN were also resistant to gemcitabine (2.4-fold by ID50 and 2.5-fold by ID80). Furthermore, Ara-C-resistance could be completely reversed in LCDSN-transduced CEM cells by a specific inhibitor of cytidine deaminase, tetrahydrouridine (THU). Expression of the transgene was confirmed by RNase-protection assay and by an enzyme activity assay. These results provide the first direct evidence that forced expression of cytidine deaminase confers cellular resistance to Ara-C and gemcitabine.
The sialidase superfamily and its spread by horizontal gene transfer (1993)

Sialidases (neuraminidases, EC 3.2.1.18) belong to a class of glycosyl hydrolases that release terminal N-acylneuraminate (sialic acid) residues from glycoproteins, glycolipids, and polysaccharides. These enzymes are common in animals of the deuterostomate lineage (Echinodermata through Mammalia) and also in diverse microorganisms that mostly exist as animal commensals or pathogens. Sialidases, and their sialyl substrates, appear to be absent from plants and most other metazoans. Even among bacteria, sialidase is found irregularly so that related species or even strains of one species differ in this property. This unusual phylogenetic distribution makes sialidases interesting for evolutionary studies. The biochemical diversity among bacterial sialidases does not indicate close relationships. However, at the molecular level, homologies are detectable, supporting the hypothesis of a common sialidase origin and thus of a sialidase superfamily. Some findings indicate that sialidase genes were recently transferred via phages among bacteria. The proposal of a sialidase origin in higher animals is suggested by the presence of apparently homologous enzymes in this kingdom, supporting the idea that some microbes may have acquired the genetic information during association with their animal hosts.
Experimental observations of bistability and instability in a two-dimensional nonlinear optical superlattice (1993)

Optical bistability in a two-dimensional nonlinear superlattice, resulting from the index-modulation mechanism, was observed in experiment for the first time. The two-dimensional nonlinear superlattice was constructed by recording a two-dimensional refractive index grating into a photorefractive material, a Fe-doped ${\mathrm{LiNbO}}_{3}$ single crystal. Optical instability was also observed in this experiment.