gebhart/patrepeval huggingface dataset:
Role of AP2/EREBP transcription factors in gene regulation during abiotic stress (2001)

Crop plants are exposed to many types of abiotic stress during their life cycle. Water deficit derived from drought, low temperature or high salt concentration in the soil, is one of the most common environmental stresses that affects growth and development of plants through alterations in metabolism and gene expression. Adaptation to these conditions may involve passive tolerance or active homeostatic mechanisms for maintaining water balance. Active responses occur at different levels in the plant and may represent a concomitant protection against other types of stress such as pathogen attack. Many morphological and physiological adaptations to water stress are under the control of the plant hormone abscisic acid and involve specific activation of target genes that in one way or another protect cells against water deficit or participate in the regulation of the drought response. Here, we discuss recent advances in our understanding of drought adaptation mediated by specific changes in gene expression and the role of AP2/EREBP nuclear factors in these processes.
Identification of Respiratory Viruses in Asymptomatic Subjects (2008)

The medical literature of the past 4 decades was searched regarding respiratory virus detection by polymerase chain reaction and conventional methods (culture, antigen detection, serology) in asymptomatic subjects in an attempt to determine the prevalence and clinical significance of such viruses in normal persons.
AEROBIC DISSIMILATION OF GLUCOSE BY HETEROLACTIC BACTERIA (1972)

Properties of COA-dependent aldehyde dehydrogenase and NAD-linked alcohol dehydrogenase of Leuconostoc mesenteroides IFO 3426 were studied, and it was found that the two dehydrogenases cannot be separated from each other, as well as from those of Escherichia coli B, by various methods of enzyme fractionation. It was also observed that the dehydrogenases of Leuconostoc mesenteroides appeared in a precipitate fraction prepared by centrifugation at 105, 000×g, and estimated to be associated with intracellular particles containing RNA.
FMR1 Genotype with Autoimmunity-Associated Polycystic Ovary-Like Phenotype and Decreased Pregnancy Chance (2010)

The FMR1 gene partially appears to control ovarian reserve, with a specific ovarian sub-genotype statistically associated with a polycystic ovary (PCO)- like phenotype. Some forms of PCO have been associated with autoimmunity. We, therefore, investigated in multiple regression analyses associations of ovary-specific FMR1 genotypes with autoimmunity and pregnancy chances (with in vitro fertilization, IVF) in 339 consecutive infertile women (455 IVF cycles), 75 with PCO-like phenotype, adjusted for age, race/ethnicity, medication dosage and number of oocytes retrieved. Patients included 183 (54.0%) with normal (norm) and 156 (46%) with heterozygous (het) FMR1 genotypes; 133 (39.2%) demonstrated laboratory evidence of autoimmunity: 51.1% of het-norm/low, 38.3% of norm and 24.2% het-norm/high genotype and sub-genotypes demonstrated autoimmunity (p=0.003). Prevalence of autoimmunity increased further in PCO-like phenotype patients with het-norm/low genotype (83.3%), remained unchanged with norm (34.0%) and decreased in het-norm/high women (10.0%; P<0.0001). Pregnancy rates were significantly higher with norm (38.6%) than het-norm/low (22.2%, p=0.001). FMR1 sub-genotype het-norm/low is strongly associated with autoimmunity and decreased pregnancy chances in IVF, reaffirming the importance of the distal long arm of the X chromosome (FMR1 maps at Xq27.3) for autoimmunity, ovarian function and, likely, pregnancy chance with IVF.
High-aspect-ratio, ultrathick, negative-tone near-uv photoresist for MEMS applications (2002)

Detailed investigations of the limits of a new negative-tone near-UV resist (IBM SU-8) have been performed. SU-8 is an epoxy-based resist designed specifically for ultrathick, high-aspect-ratio MEMS-type applications. We have demonstrated that with single-layer coatings, thicknesses of more than 500 /spl mu/m can be achieved reproducibly. Thicker resist layers can be made by multiple coatings, and we have achieved exposures in 1200-/spl mu/m-thick, double coated SU-8 resist layers. We have found that the aspect ratio for near-UV (400 nm) exposed and developed structures can be greater than 18 and remains constant in the thickness range between 80 and 1200 /spl mu/m. Vertical sidewall profiles result in good dimensional control over the entire resist thickness. To our knowledge, this is the highest aspect ratio reported for near-UV exposures and resist thicknesses. These results will open up new possibilities for low-cost LIGA-type processes for MEMS applications. In addition, the SU-8 material has interesting mechanical properties which also makes it attractive for photoplastic device fabrication.
Allosteric Modulation of Ligand Binding to Low Density Lipoprotein Receptor-related Protein by the Receptor-associated Protein Requires Critical Lysine Residues within Its Carboxyl-terminal Domain (2003)

The low density lipoprotein receptor-related protein (LRP) is a large endocytic receptor that recognizes more than 30 different ligands and plays important roles in protease and lipoprotein catabolism. Ligand binding to newly synthesized LRP is modulated by the receptor-associated protein (RAP), an endoplasmic reticulum-resident protein that functions as a molecular chaperone and prevents ligands from associating with LRP via an allosteric-type mechanism. RAP is a multidomain protein that contains two independent LRP binding sites, one located at the amino-terminal portion of the molecule and the other at the carboxyl-terminal portion of the molecule. The objective of the present investigation was to gain insight into how these two regions of RAP interact with LRP and function to modulate its ligand binding properties. These objectives were accomplished by random mutagenesis of RAP, which identified two critical lysine residues, Lys-256 and Lys-270, within the carboxyl-terminal domain that are necessary for binding of this region of RAP to LRP and to heparin. RAP molecules in which either of these two lysine residues was mutated still bound LRP but with reduced affinity. Furthermore, the mutant RAPs were significantly impaired in their ability to inhibit alpha(2)M* binding to LRP via allosteric mechanisms. In contrast, the mutant RAP molecules were still effective at inhibiting uPA.PAI-1 binding to LRP. These results confirm that both LRP binding sites within RAP cooperate to inhibit ligand binding via an allosteric mechanism.
Elastic Modulus Determination of Normal and Glaucomatous Human Trabecular Meshwork (2011)

The data indicate that the stiffness of glaucomatous HTM is significantly increased compared with that of normal HTM. Modeling exercises support substantial impairment in outflow facility with increased HTM stiffness. Alterations in the biophysical attributes of the HTM may participate directly in the onset and progression of glaucoma.
Phase II Trial of Oral Rubitecan in Previously Treated Pancreatic Cancer Patients (2005)

Oral rubitecan produced responses and was well tolerated by heavily pretreated patients with refractory pancreatic cancer. The overall risk-benefit profile of oral rubitecan appears promising, supporting further evaluation in phase III trials in patients with refractory and chemotherapy-naive pancreatic cancer.
Epoxyeicosatrienoic Acids and Dihydroxyeicosatrienoic Acids Are Potent Vasodilators in the Canine Coronary Microcirculation (1998)

Cytochrome P450 epoxygenases convert arachidonic acid into 4 epoxyeicosatrienoic acid (EET) regioisomers, which were recently identified as endothelium-derived hyperpolarizing factors in coronary blood vessels. Both EETs and their dihydroxyeicosatrienoic acid (DHET) metabolites have been shown to relax conduit coronary arteries at micromolar concentrations, whereas the plasma concentrations of EETs are in the nanomolar range. However, the effects of EETs and DHETs on coronary resistance arterioles have not been examined. We administered EETs and DHETs to isolated canine coronary arterioles (diameter, 90.0+/-3.4 microm; distending pressure, 20 mm Hg) preconstricted by 30% to 60% of the resting diameter with endothelin. All 4 EET regioisomers produced potent, concentration-dependent vasodilation (EC50 values ranging from -12.7 to -10.1 log [M]) and were approximately 1000 times more potent than reported in conduit coronary arteries. The vasodilation produced by 14,15-EET was not attenuated by removal of the endothelium and indicated a direct action of 14,15-EET on microvascular smooth muscle. Likewise, 14,15-DHET, 11,12-DHET, 8,9-DHET, and the delta-lactone of 5,6-EET produced extremely potent vasodilation (EC50 values ranging from -15.8 to -13.1 log [M]). The vasodilation produced by these eicosanoids was highly potent in comparison to that produced by other vasodilators, including arachidonic acid (EC50=-7.5 log [M]). The epoxide hydrolase inhibitor, 4-phenylchalone oxide, which blocked the conversion of [3H]14,15-EET to [3H]14,15-DHET by canine coronary arteries, did not alter arteriolar dilation to 11,12-EET; thus, the potent vasodilation induced by EETs does not require formation of DHETs. In contrast, charybdotoxin (a KCa channel inhibitor) and KCl (a depolarizing agent) blocked vasodilation by 11,12-EET and 11,12-DHET. We conclude that EETs and DHETs potently dilate canine coronary arterioles via activation of KCa channels. The preferential ability of these compounds to dilate resistance blood vessels suggests that they may be important regulators of coronary circulation.
Mechanistic hypotheses for the activation of G-protein-coupled receptors. (1996)

G-protein-coupled receptors (GPCR) play an important role in the functioning of the nervous and endocrine systems. Intensive efforts devoted to mutational analyses of GPCR have greatly enhanced our understanding of the receptor-G-protein signalling pathway. Nonetheless, the lack of receptor structural data mandates that the mechanism of receptor activation can only be probed indirectly through hypothesis testing. Mechanistic models at two different levels, a thermodynamic model and a structural model, are reviewed here. A general thermodynamic model can be used as a framework for analyzing macroscopic experimental data, while a probability function based on a helical-rotation model can potentially provide a link between microscopic conformational changes and macroscopic rate constants and equilibrium constants. Conformational induction and conformational selection are two inseparable consequences of the receptor-binding system. Mechanistic models based on the integration of mutational data, spectroscopic data, and model simulation will form a foundation upon which further experiments can be designed, and consideration of both thermodynamic and structural principles will provide coherent insights into the receptor-activation process.
[Mechanism of tumor cell invasion studied by a culture model--modification of invasiveness by host mediators]. (1993)

A culture model for invasion of rat mesothelial cell layer by rat ascites hepatoma cells has been developed. By using this quantitative model, we have recently found that the invasiveness of tumor cells is not only genetically determined but is greatly influenced by their interactions with host cells and host mediators. The preculture with macrophages was found to enhance both the in vitro and in vivo invasive potentials of the tumor cells. This potentiation appears to be mediated partly by oxygen radicals generated by the cocultured macrophages. The in vitro invasive capacity was also augmented by pretreating the tumor cells with TGF-beta, or with activated platelets. In the in vitro invasion assay system, tumor cells did not invade against cultured mesothelial cell monolayers without fetal calf serum. Serum could be completely substituted by oleoyl-lysophosphatidic acid (LPA) or bacterial phospholipase D (PLD), suggesting a possible participation of particular signaling cascade, PLD-LPA(PA) system, in the invasion of certain tumor cells.
Binding of streptococci of the “mutans” group to type 1 collagen associated with apatitic surfaces (1990)

The present study surveyed the ability of 21 strains of cariogenic streptococci of the "mutans" group to bind to human type 1 collagen adsorbed on hydroxyapatite (HA) surfaces. All strains of Streptococcus cricetus (serotype a) and Streptococcus rattus (serotype b) tested attached strongly to collagen-treated HA (C-HA). Streptococcus mutans strains of serotype c and Streptococcus sobrinus strains of serotype d or g attached poorly; or not at all, to C-HA. S. mutans strains OMZ-175 (serotype f) and B14 (serotype e) were exceptions which exhibited significant binding to C-HA. Binding of S. cricetus AHT and S. rattus LB-1 to C-HA occurred in a dose-dependent manner, and was specific since it was inhibited by the presence of soluble collagen, but not by egg albumin, or by human fibrinogen or fibronectin. Binding occurred maximally between pH 6 and 8 and was not affected by any of several sugars tested. Trypsin treatment the streptococci had little affect, but heating at 100 degrees C reduced their ability to bind to C-HA.
Magnetic Fluorescent Delivery Vehicle Using Uniform Mesoporous Silica Spheres Embedded with Monodisperse Magnetic and Semiconductor Nanocrystals (2005)

We synthesized uniform pore-sized mesoporous silica spheres embedded with magnetite nanocrystal and quantum dots. The magnetic separation, luminescent detection, and controlled release of drugs were demonstrated using the uniform mesoporous silica spheres embedded with monodisperse nanocrystals.
Mapping nonselectable genes of Escherichia coli by using transposon Tn10: location of a gene affecting pyruvate oxidase (1982)

Mutants of Escherichia coli K-12 deficient in pyruvate oxidase were isolated by screening for the production of 14CO2 from [1-14C]pyruvate by the method of Tabor et al. (J. Bacteriol. 128:485-486, 1976). One of these lesions (designated poxA) decreased the pyruvate oxidase activity to 10 to 15% of the normal level but grew well. To map this nonselectable mutation, we isolated strains having transposon Tn10 inserted into the chromosome close to the poxA locus and mapped the transposon. These insertions were isolated by the following procedure: (i) pools of Tn10 insertions into the chromosomes of two different Hfr strains were prepared by transposition from a lambda::Tn10 vector; (ii) these Tn10-carrying strains were then mated with a poxA recipient strain, and tetracycline-resistant (Tetr) recombinants were selected; (iii) the Tetr recombinants were then screened for 14CO2 production from [1-14C]pyruvate. This method was shown to give a greater than 40-fold enrichment of insertions of Tn10 near the poxA gene as compared with transduction. Calculations indicate that a similar enrichment should be expected for other genes. The enrichment is due to the much greater map interval over which strong linkage between selected and unselected markers is found in conjugational crosses as compared with transductional crosses. The use of Hfr conjugative transfer allows isolation of transposon insertions closely linked to a nonselectable gene by scoring hundreds rather than thousands of colonies. Using a Tn10 insertion greater than 98% cotransduced with the poxA locus, we mapped the poxA gene on the E. coli genetic map. The poxA locus is located at 94 min, close to the psd locus. The clockwise gene order is ampA, poxA, psd, purA. The poxA mutation is recessive and appears to be a regulatory gene.
15 AU81, A PROSTACYCLIN ANALOG, POTENTIATES IMMUNOSUPPRESSION AND MITIGATES RENAL INJURY DUE TO CYCLOSPORINE (1993)

15 AU81, a synthetic prostacyclin analog, inhibits human mixed lymphocyte culture responses in a dose-dependent manner at concentrations within a range [0.1 to 10.0 micrograms/ml] similar to that of cyclosporine, methylprednisolone, antilymphocyte serum, and prostaglandin E1 and E2 analogs. Using the median-effect analysis to dissect immunosuppressive interactions, 15 AU81 and cyclosporine were shown to produce synergistic effects on human peripheral blood lymphocyte activation upon phytohemagglutinin or anti-CD3 monoclonal antibody stimulation. In vivo, 15 AU81 potentiated the effect of cyclosporine to prolong the survival of rabbit renal allografts using concentrations of each agent that were individually ineffective. Furthermore, addition of 15 AU81 mitigated functional damage of rabbit kidneys due to high-dose cyclosporine therapy. These observations suggest that the addition of 15 AU81 may broaden the therapeutic window of cyclosporine by potentiating immunosuppression and mitigating nephrotoxic effects.
A new MOSFET hot carrier model in SPICE feasible for VLSI reliability analysis (2002)

A newly-developed SPICE-compatible submicron LDD MOS transistor model for simulating the hot electron effect in VLSI circuit is proposed. It includes a consistent DC (I-V) and hot electron induced degradation model. Experiment measurement, parameter extraction and optimization were performed to obtain a new set of drain- and substrate-current under both DC- and AC-stress conditions. Incorporation of the above model equations in SPICE has been made. In addition, hot electron induced degradation effect and the reliability analysis in a circuit simulation environment are demonstrated with practical examples.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>
Towards a New Biochemistry? (1941)

In this lecture, Szent-Gyorgyi suggested for the first time that quantum theory might be productively applied to explain certain
 biological processes. From the late 1950s on, he devoted most of his research efforts to the pursuit of the ideas outlined
 here.
Up‐to‐date Report of Botulinum Toxin Type A Treatment in Patients With Gustatory Sweating (Frey's Syndrome) (1998)

Several therapeutic approaches exist to treat gustatory sweating (Frey's syndrome) following parotidectomy. Because of the lack of effective treatment, a new therapeutic modality using botulinum toxin injections was presented previously by our group. The duration of the demonstrated positive effect was essentially unknown so far. Based on our experiences using this technique since December 1993, the purpose of this clinical investigation was to make an up-to-date report and demonstrate the duration of effect of BOTOX injections in patients with severe gustatory sweating. Nineteen patients with severe gustatory sweating have been treated with BOTOX by intracutaneous injections into the affected skin areas. The maximal follow-up time was 33 months. The results were obtained by interviews and controls using Minor's starch iodine test. In all treated cases (n = 19 patients, 22 treated sides) gustatory sweating ceased completely within 2 days. Side effects were absent. In 12 patients gustatory sweating reappeared. The mean duration of effect was 17.3 months (subjective personal communication of 18 patients). Findings show that intracutaneous injection of BOTOX is a highly effective, safe, and minimally invasive treatment of Frey's syndrome with long-lasting therapeutic effect.
Humoral factors of resistance in the cohort of workers exposed to vinylchloride in the span of six years, concerning the influence of smoking. (1986)

A cohort of 66 workers professionally exposed to vinylchloride (VC) in a plant producing polyvinylchloride was examined in years 1979 and 1985 by same methods. Significant changes of the levels of immunoglobulins (Ig), lysozyme and transferrin were not observed during the six years in the subgroup of smokers. Nevertheless a highly significant rise of alpha 2 macroglobulin (A2M) and ceruloplasmin (CPL) levels in this subgroup was stated. The levels of IgA and IgM significantly rose in the subgroup of ex-smokers, as well as highly significant increase of A2M was noted in this subgroup. The levels of IgG and A2M rose with highly significance in the subgroup of non-smokers; the CPL increase was only of weak significance. Many significant differences in means were assessed between subgroups of exposed workers and age matched control persons. No significant correlation between the levels of the tests and the time of exposure to VC was observed by regression analysis. In the discussion an opinion about possible premature aging of persons exposed to VC was brought forward.
Crystal structures of apo and inhibitor-bound TGFβR2 kinase domain: insights into TGFβR isoform selectivity (2016)

The cytokine TGF-β modulates a number of cellular activities and plays a critical role in development, hemostasis and physiology, as well as in diseases including cancer and fibrosis. TGF-β signals through two transmembrane serine/threonine kinase receptors: TGFβR1 and TGFβR2. Multiple structures of the TGFβR1 kinase domain are known, but the structure of TGFβR2 remains unreported. Wild-type TGFβR2 kinase domain was refractory to crystallization, leading to the design of two mutated constructs: firstly, a TGFβR1 chimeric protein with seven ATP-site residues mutated to their counterparts in TGFβR2, and secondly, a reduction of surface entropy through mutation of six charged residues on the surface of the TGFβR2 kinase domain to alanines. These yielded apo and inhibitor-bound crystals that diffracted to high resolution (<2 Å). Comparison of these structures with those of TGFβR1 reveal shared ligand contacts as well as differences in the ATP-binding sites, suggesting strategies for the design of pan and selective TGFβR inhibitors.
Postoperative Monitoring of the Electrical Properties of Tissue and Electrodes in Deep Brain Stimulation (2003)

The aim of this study was to investigate the causation of an insufficient clinical response to acute external stimulation after implantation of brain stimulating electrodes in patients with idiopathic Parkinson's disease (IPD). This study represents to our knowledge the first consecutive postoperative monitoring of the electrical properties of electrodes and tissue in this patient cohort. We hypothesized that changes in brain tissue resistance would be etiologic for this clinically observed phenomenon. Eight patients with IPD were monitored over a fixed time course (day 1-7). The voltage drop on the electrodes and in the tissue was measured. Our measurements indicate a significant inhomogeneity of the surrounding tissue and a marked interpatient difference of the electrode voltage drop. The changes of the voltage drop on the electrodes and the tissue were insignificant over the time course. We conclude that the decline of the clinical benefit is not due to an alteration of tissue resistivity. As an explanation, we postulate that the reactive formation/resolution of edema around the electrode has the same resistivity as the target and is therefore not detectable by our measurements or modulated by a still unknown mechanism.