gebhart/patrepeval huggingface dataset:
Defining Refractory Migraine and Refractory Chronic Migraine: Proposed Criteria From the Refractory Headache Special Interest Section of the American Headache Society (2008)

Certain migraines are labeled as refractory, but the entity lacks a well-accepted operational definition. This article summarizes the results of a survey sent to American Headache Society members to evaluate interest in a definition for RM and what were considered necessary criteria. Review of the literature, collaborative discussions and results of the survey contributed to the proposed definition for RM. We also comment on our considerations in formulating the criteria and any issues in making the criteria operational. For the proposed definition for RM and refractory chronic migraine, patients must meet the International Classification of Headache Disorders, Second Edition criteria for migraine or chronic migraine, respectively. Headaches need to cause significant interference with function or quality of life despite modification of triggers, lifestyle factors, and adequate trials of acute and preventive medicines with established efficacy. The definition requires that patients fail adequate trials of preventive medicines, alone or in combination, from at least 2 of 4 drug classes including: beta-blockers, anticonvulsants, tricyclics, and calcium channel blockers. Patients must also fail adequate trials of abortive medicines, including both a triptan and dihydroergotamine (DHE) intranasal or injectable formulation and either nonsteroidal anti-inflammatory drugs (NSAIDs) or combination analgesic, unless contraindicated. An adequate trial is defined as a period of time during which an appropriate dose of medication is administered, typically at least 2 months at optimal or maximum-tolerated dose, unless terminated early due to adverse effects. The definition also employs modifiers for the presence or absence of medication overuse, and with or without significant disability.
Capillary growth in anemia-induced ventricular wall remodeling in the rat heart. (1989)

To determine whether anemia-induced cardiac hypertrophy affects ventricular size and shape and the component structures of the capillary network of the left and right ventricles, young male rats were fed an iron- and copper-deficient diet for 7 weeks. By that time, blood hemoglobin content fell to 5 +/- 1 g/dl, and packed cell volume fell to 18 +/- 3%. To further characterize the implications of anemia, red blood cell number, hemoglobin corpuscular content, systemic arterial pressure, heart rate, and blood viscosity were measured. Moreover, the changes in ventricular weights were analyzed in terms of the alterations in ventricular wall area and ventricular wall thickness to establish the impact of the elevation in load associated with a high cardiac output state on ventricular remodeling. The quantitative properties of the capillary circulation were also examined biventricularly by low power electron microscopic morphometry to evaluate the adaptive growth potential of the coronary microcirculation in this form of cardiac hypertrophy. Anemia was found to interfere with the production of red blood cells and their mean corpuscular hemoglobin content and resulted in a 40% reduction in blood viscosity and a 12% and 27% decrease in systolic and diastolic blood pressure, respectively. The changes in heart rate were not statistically significant. In comparison with control animals, heart weight increased by 50%, but the enlargement in right ventricular mass (65%) was greater than that of the left ventricle (47%). Ventricular hypertrophy occurred with increases in wall area and wall thickness although the former increased consistently more than the latter in either ventricle. Tissue growth was accompanied by a 60% lengthening of the capillary network, which in combination with an increase in capillary diameter resulted in a 65% and 34% expansion in capillary luminal volume and 56% and 20% larger luminal surface density in the left and right sides of the heart, respectively. In conclusion, hypochromic microcytic anemia leads to eccentric ventricular hypertrophy with a significant amount of capillary proliferation that may tend to protect the myocardium from the increased potential for ischemic injury.
HIV-1 infection in rural Africa: is there a difference in median time to AIDS and survival compared with that in industrialized countries? (2002)

Survival with HIV-1 infection is similar in Africa to industrialized countries before the use of antiretroviral therapy; when they do die, many of those in Africa are severely immunosuppressed and most have clinical features of AIDS.
Constructed Wetlands for Wastewater Treatment: Five Decades of Experience (2010)

The first experiments on the use of wetland plants to treat wastewaters were carried out in the early 1950s by Dr. Käthe Seidel in Germany and the first full-scale systems were put into operation during the late 1960s. Since then, the subsurface systems have been commonly used in Europe while free water surface systems have been more popular in North America and Australia. During the 1970s and 1980s, the information on constructed wetland technology spread slowly. But since the 1990 s the technology has become international, facilitated by exchange among scientists and researchers around the world. Because of the need for more effective removal of ammonia and total nitrogen, during the 1990 s and 2000s vertical and horizontal flow constructed wetlands were combined to complement each other to achieve higher treatment efficiency. Today, constructed wetlands are recognized as a reliable wastewater treatment technology and they represent a suitable solution for the treatment of many types of wastewater.
Viability Testing of Orchid Seed and the Promotion of Colouration and Germination (2000)

This study reports the ability of Fusarium to induce orchid seed colouration and germination. The in vitro bioassay germination test, using a Fusarium isolate from the protocorm of Cypripedium reginae , was compared with standard chemical procedures of triphenyl tetrazolium chloride (TTC) and acid fuchsin (AC) for testing seed viability. With Cypripedium reginae , Cypripedium parviflorum and Platanthera grandiflora , the efficiency of the bioassay was similar to that of the TTC and AC procedures. However, the bioassay was more appropriate for estimating embryo viability after a prolonged seed pretreatment (more than 2 h) in 10% sodium hypochlorite, a surface sterilant often used to enhance germination of terrestrial species. We also obtained in vitro Cypripedium reginae seed germination induction and protocorm formation by the same Fusarium isolate. This is the first confirmation of Bernard's early reports that orchid fusaria could stimulate seed germination (Bernard N. 1990. Révue Générale de Botanique12 : 108–120). However, the importance of the non-mycorrhizal Fusarium fungus in promoting germination seems to be relatively minor compared to that of specific Rhizoctonia orchid mycorrhizas. Our results are discussed in light of the current North American strategy on orchid conservation methods which proposes the use of symbiotic germination. Copyright 2000 Annals of Botany Company
Investigations of Operational Lifetime and Modes of Failure of Organic Light Emitting Devices (2004)

Abstract : Reliability limitations of organic light emitting devices (OLEDs) were explored in a joint effort project lead by Princeton University, with subcontracting efforts by the University of Southern California, the University of Texas and Universal Display Corporation. Methodologies and protocols for screening of device structures and materials were developed. Extended lifetimes of red, green and blue phosphorescent OLEDs were achieved. For example, lifetimes of over 50,000 hours were obtained for both red and green devices. Blue device lifetimes observed were still less than 1000 hours. This difference in blue lifetime was studied using through both photo- and electro-luminescence methods, and was determined to be due, in part, to the high energies needed to excite the blue lumophores, which results in charge imbalance in the emission layers of the OLEDs. Contact degradation was also studied at the microscopic scale using near-field scanning optical microscopy (NSOM) in concert with our transparent OLED structure (TOLED). It was found that defects introduced during processing are largely responsible for the formation and growth of dark spots.
Discovery of 7-Methyl-5-(1-{[3-(trifluoromethyl)phenyl]acetyl}-2,3-dihydro-1H-indol-5-yl)-7H-pyrrolo[2,3-d]pyrimidin-4-amine (GSK2606414), a Potent and Selective First-in-Class Inhibitor of Protein Kinase R (PKR)-like Endoplasmic Reticulum Kinase (PERK) (2012)

Protein kinase R (PKR)-like endoplasmic reticulum kinase (PERK) is activated in response to a variety of endoplasmic reticulum stresses implicated in numerous disease states. Evidence that PERK is implicated in tumorigenesis and cancer cell survival stimulated our search for small molecule inhibitors. Through screening and lead optimization using the human PERK crystal structure, we discovered compound 38 (GSK2606414), an orally available, potent, and selective PERK inhibitor. Compound 38 inhibits PERK activation in cells and inhibits the growth of a human tumor xenograft in mice.
The enterotoxin D plasmid ofStaphylococcus aureusencodes a second enterotoxin determinant (sej) (1998)

Staphylococcus aureus enterotoxin D is one of the serotypes most commonly associated with food poisoning. Further characterization of the enterotoxin D-encoding plasmid revealed the presence of an open reading frame which encodes a previously unidentified enterotoxin, designated staphylococcal enterotoxin J (SEJ). SEJ is a protein of 269 amino acid residues which has substantial sequence similarity to the staphylococcal A, E, D family of enterotoxins. The enterotoxin D and J open reading frames are transcribed in opposite directions and are separated by an 895 nucleotide intergenic region which contains a perfect inverted repeat, with each arm of the repeat having a length of 21 nucleotides. Chloramphenicol acetyl transferase (cat) transcriptional fusions were used to quantify expression from the enterotoxin gene promoters. Both enterotoxin genes are expressed in S. aureus. However, only sed is regulated by the agr virulence gene signal transduction pathway. Western blot analyses utilizing anti-enterotoxin antisera have confirmed the results obtained with the cat reporter system. PCR amplification studies suggest that the sej determinant may be present on all sed-encoding plasmids.
Functional equivalence of Escherichia coli sigma E and Pseudomonas aeruginosa AlgU: E. coli rpoE restores mucoidy and reduces sensitivity to reactive oxygen intermediates in algU mutants of P. aeruginosa (1995)

Mucoid colony morphology is the result of the overproduction of the exopolysaccharide alginate and is considered to be a major pathogenic determinant expressed by Pseudomonas aeruginosa during chronic respiratory infections in cystic fibrosis. Conversion to mucoidy can be caused by mutations in the second or third gene of the stress-responsive system algU mucA mucB. AlgU is 66% identical to the alternative sigma factor RpoE (sigma E) from Escherichia coli and Salmonella typhimurium and directs transcription of several critical alginate biosynthetic and regulatory genes. AlgU is also required for the full resistance of P. aeruginosa to reactive oxygen intermediates and heat killing. In this work, we report that E. coli sigma E can complement phenotypic defects of algU inactivation in P. aeruginosa: (i) the rpoE gene from E. coli complemented an algU null mutant of P. aeruginosa to mucoidy; (ii) the presence of the E. coli rpoE gene in P. aeruginosa induced alginate production in the standard genetic nonmucoid strain PAO1; (iii) the plasmid-borne E. coli rpoE gene induced transcription of algD, a critical algU-dependent alginate biosynthetic gene; and (iv) when present in algU::Tcr mutants, E. coli rpoE partially restored resistance to paraquat, a redox cycling compound that increases intracellular levels of superoxide radicals. A new gene, mclA, encoding a polypeptide with an apparent molecular mass of 27.7 kDa was identified immediately downstream of rpoE in E. coli. The predicted product of this gene is 28% identical (72% similar) to MucA, a negative regulator of AlgU activity in P. aeruginosa. The results reported in this study demonstrate that RpoE and AlgU are functionally interchangeable in P. aeruginosa and suggest that elements showing sequence similarity to those known to regulate AlgU activity in P. aeruginosa are also present in other bacteria.
Video flashlights: real time rendering of multiple videos for immersive model visualization (2002)

Videos and 3D models have traditionally existed in separate worlds and as distinct representations. Although texture maps for 3D models have been traditionally derived from multiple still images, real-time mapping of live videos as textures on 3D models has not been attempted. This paper presents a system for rendering multiple live videos in real-time over a 3D model as a novel and demonstrative application of the power of commodity graphics hardware. The system, metaphorically called the Video Flashlight system, a static 3D model with live video textures from static and moving cameras in the same way as a flashlight (torch) illuminates an environment. The Video Flashlight system is also an augmented reality solution for security and monitoring systems that deploy numerous cameras to monitor a large scale campus or an urban site. Current video monitoring systems are highly limited in providing global awareness since they typically display numerous camera videos on a grid of 2D displays. In contrast, the Video Flashlight system exploits the real-time rendering capabilities of current graphics hardware and renders live videos from various parts of an environment co-registered with the model. The user gets a global view of the model and is also able to visualize the dynamic videos simultaneously in the context of the model. In particular, the location of pixels and objects seen in the videos are precisely overlaid on the model while the user navigates through the model. The paper presents an overview of the system, details of the real-time rendering and demonstrates the efficacy of the augmented reality application.
Vaccination for the prevention and treatment of Alzheimer's disease (2000)

In vitro studies showed that beta-amyloid peptide neurotoxicity correlates with the formation of fibrillar beta-amyloid and the variation in neurotoxic potency is related to the extent of peptide aggregation. Many efforts are being focused on the development of potent and selective inhibitors of amyloid formation in order to reduce the extent of their deposition and related neurotoxic effects. In our laboratory we are pioneering the idea that site-directed monoclonal antibodies (MAbs) can solubilize synthetic beta-amyloid aggregates. Production and performance of such antibodies by repeated injections of toxic human beta-amyloid fibrils into transgenic mice suggests the feasibility of vaccination against Alzheimer's disease (AD). Here we report the development of a novel immunization procedure for the production of effective antiaggregating beta-amyloid antibodies. The antigen is built from filamentous phages displaying the only four amino acids EFRH located at positions 3-6 of the beta-amyloid peptide found to be the main regulatory site of amyloid formation. Autoimmune antibodies are obtained by EFRH phage administration in guinea pigs, which exhibit human identity in the beta-amyloid peptide region. Availability of such antibodies opens up possibilities for the development of an efficient and long-lasting immunization procedure for the treatment of AD.
Control of systems with deadzones using neural-network based learning controller (2002)

Conventional controllers, such as PD or PID controllers, are widely used in industrial applications, since it is simple, cheap and robust. Such controllers exhibit poor performance when applied to systems containing non-smooth nonlinearity. In this paper, the authors present a neural-network based learning controller for systems having a non-smooth nonlinearity with unknown parameters, specifically, a deadzone. The control scheme consists of a conventional PD controller and CMAC network. The authors illustrate the effectiveness of their scheme using computer simulation examples.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>
Surface Enhanced Raman Scattering Enhancement Factors:  A Comprehensive Study (2007)

This paper presents an in-depth study of Surface Enhanced Raman Scattering (SERS) enhancement factors (EFs) and cross-sections, including several issues often overlooked. In particular, various possible rigorous definitions of the SERS EFs are introduced and discussed in the context of SERS applications, such as analytical chemistry and single molecule SERS. These definitions highlight the importance of a careful characterization of the non-SERS cross-sections of the probes under consideration. This aspect is illustrated by experimental results for the non-SERS cross-sections of representative SERS probes along with average SERS EFs for the same probes. In addition, the accurate experimental determination of single molecule enhancement factors is tackled with two recently developed techniques, namely: bi-analyte SERS (BiASERS) and temperature-dependent SERS vibrational pumping. We demonstrate that SERS EFs as low as 107, as opposed to the figure of 1014 often claimed in the literature, are sufficient for the observation of single molecule SERS signals, with maximum single molecule EFs typically on the order of ∼1010.
Gutingimycin: A Highly Complex Metabolite from a Marine Streptomycete (2004)

An intriguing catch: Gutingimycin (1) from the marine streptomycete isolate B8652 is a conjugate of guanine and trioxacarcin A, as extensive NMR measurements and a crystal structure analysis show. The natural product is formed most likely by the selective attack of trioxacarcin A on the bacterial DNA, which results in strand breakage and may explain the high cytotoxicity of the latter.
Consensus sequences for good and poor removal of uracil from double stranded DNA by uracil-DNA glycosylase (1993)

We have purified uracil DNA-glycosylase (UDG) from calf thymus 32,000-fold and studied its biochemical properties, including sequence specificity. The enzyme is apparently closely related to human UDG, since it was recognised by a polyclonal antibody directed towards human UDG. SDS-PAGE and western analysis indicate an apparent M(r) = 27,500. Bovine UDG has a 1.7-fold preference for single stranded over double stranded DNA as a substrate. Sequence specificity for uracil removal from dsDNA was examined for bovine and Escherichia coli UDG, using DNA containing less than one dUMP residue per 100 nucleotides and synthetic oligonucleotides containing one dUMP residue. Comparative studies involving about 40 uracil sites indicated similar specificities for both UDGs. We found more than a 10-fold difference in rates of uracil removal between different sequences. 5'-G/CUT-3' and 5'-G/CUG/C-3' were consensus sequences for poor repair whereas 5'-A/TUAA/T-3' was a consensus for good repair. Sequence specificity was verified in double stranded oligonucleotides, but not in single stranded ones, suggesting that the structure of the double stranded DNA helix has influence on sequence specificity. Rate of uracil removal appeared to be slightly faster from U:A base pairs as compared to U:G mis-matches. The results indicate that sequence specific repair may be a determinant to be considered in mutagenesis.
MicroRNAs and prostate cancer (2010)

MicroRNAs (miRNAs) are a class of small, non-coding, single-stranded RNAs that negatively regulate gene expression by mainly binding to 30 untranslated region (UTR) of target mRNAs at the post-transcriptional level. Recent studies have demonstrated that aberrant expressions of miRNAs are closely associated with the development, invasion, metastasis and prognosis of various cancers including prostate cancer (PCa). The proposed molecular mechanisms that underlie the aberrant expression of miRNAs result from gene changes, epigenetic modification and alteration of Dicer abundance. Although up to 50 miRNAs have been reported to be significantly expressed in human PCa, only a small number of them were experimentally shown to make contribution to the pathogenesis of PCa. The aim of this review is to describe the mechanisms of several known miRNAs, summarize recent studies on the relevance of altered expression of oncogenic miRNAs (e.g. miR-221/-222, miR-21, and miR-125b) and tumor suppressor miRNAs (e.g. miR-101, miR-126*, miR-146a, miR-330, miR-34 cluster, and miR-200 family) for PCa. Additionally, their potential clinical applications and prospects in PCa, such as biomarkers and clinical therapies, are also briefly discussed.
Colour Doppler imaging of the ocular circulation in diabetic retinopathy (2000)

Reduced blood flow velocity was found in the CRA of diabetic patients and appeared to become further reduced with the progression of retinopathy. This suggests that monitoring with Colour Doppler imaging may have predictive power in identifying those at greatest risk of developing sight threatening proliferative disease. The resistance index of the OA was increased in diabetics compared to controls.
Single amino acid (arginine) deprivation: rapid and selective death of cultured transformed and malignant cells (2000)

The effects of arginine deprivation (-Arg) has been examined in 26 cell lines. Less than 10% of those with transformed or malignant phenotype survived for > 5 days, and many died more rapidly, notably leukaemic cells. Bivariate flow cytometry confirmed that vulnerable cell lines failed to move out of cell cycle into a quiescent state (G0), but reinitiated DNA synthesis. Many cells remained in S-phase, and/or had difficulty progressing through to G2 and M. Two tumour lines proved relatively 'resistant', A549 and MCF7. Although considerable cell loss occurred initially, both lines showed a 'cell cycle freeze', in which cells survived for > 10 days. These cells recovered their proliferative activity in +Arg medium, but behaved in the same manner to a second -Arg episode as they did to the first episode. In contrast, normal cells entered G0 and survived in -Arg medium for several weeks, with the majority of cells recovering with predictable kinetics in +Arg medium. In general, cells from a wide range of tumours and established lines die quickly in vitro following -Arg treatment, because of defective cell cycle checkpoint stringency, the efficacy of the treatment being most clearly demonstrated in co-cultures in which only the normal cells survived. The findings demonstrate a potentially simple, effective and non-genotoxic strategy for the treatment of a wide range of cancers.