gebhart/patrepeval huggingface dataset:
Pandemic (H1N1) 2009: assessing the response (2010)

See also research article by Skowronski and colleagues, page [1851][1] In preparing for battle, I have always found that plans are useless, but planning is indispensable. — Dwight D. Eisenhower The debate about the management of pandemic (H1N1) 2009 is heating up as a number of government-
A comprehensive strategy for implementing BIT (weapon systems) (2003)

To describe the problem to be solved by a BIT (built-in-test) strategy, the relation of BIT to integrated diagnostics is described, followed by a discussion of the uses of BIT and the inherently self-contradictory nature of BIT's requirements. Systems allocation issues are described, including the multiple dimensions of BIT, the functions of BIT, and BIT external interfaces. Some particular solutions to the false alarm problem are discussed, followed by a description of approaches to the successful implementation of BIT software and hardware.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">></ETX>
Observer-a concept for formal on-line validation of distributed systems (1994)

Proposes the observer concept for designing self-checking distributed systems, i.e. systems that detect erroneous behaviors as soon as errors act at some observable output level. The approach provides a solution to build systems whose on-line behavior is checked against a formal model derived from a formal description. In other words, the actual implementation is continuously checked against a reference, this reference being a formal and verified model of some adequately selected aspects of the system behavior. The corresponding methodology, the software concepts and some applications of the observer are presented. General definitions are given first that theoretically define self-checking systems as systems that include and implement complete on-line validation. The basic concepts and the difficulties to implement self-checking validation are then given. In order to provide simple implementations, the previous definitions are weakened to design quasi-self-checking observers for LANs using a broadcast service. Three specific applications are given to illustrate the proposed approach: testing a virtual ring MAC protocol, checking the link and transport layers in an industrial LAN, and managing a complete OSI layering, from layer 2 to layer 6, in an open system architecture.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">></ETX>
Metastatic Competence Can Emerge with Selection of Preexisting Oncogenic Alleles without a Need of New Mutations (2015)

Several experimental models faithfully recapitulate many important facets of human metastatic disease. Here, we have performed whole-exome sequencing in five widely used experimental metastasis models that were independently derived through in vivo selection from heterogeneous human cancer cell lines. In addition to providing an important characterization of these model systems, our study examines the genetic evolution of metastatic phenotypes. We found that in vivo selected highly metastatic cell populations showed little genetic divergence from the corresponding parental population. However, selection of genetic variations that preexisted in parental populations, including the well-established oncogenic mutations KRAS(G13D) and BRAF(G464V), was associated with increased metastatic capability. Conversely, expression of the wild-type BRAF allele in metastatic cells inhibited metastatic outgrowth as well as tumor initiation in mice. Our findings establish that metastatic competence can arise from heterogeneous cancer cell populations without the need for acquisition of additional mutations and that such competence can benefit from further selection of tumor-initiating mutations that seed primary tumorigenesis.
Yerba mate may prevent diabetes according to a crossover, randomized, controlled study in humans (2020)

Abstract Yerba mate ( Ilex paraguariensis ) infusions have been shown to reduce plasma glucose in animals and serum lipids in humans. However, the effects of regularly consuming yerba mate on glucose metabolism in humans has been less studied. The objective of the study was to evaluate the effects of regularly consuming yerba mate on diabetes related biomarkers in healthy and moderately hypercholesterolemic people. A randomized, crossover, controlled study was carried out in normocholesterolemic (NC, n = 25) and hypercholesterolemic (HC, n = 27), non-smoker and non-vegetarian, men and women, with BMI 18–25 kg/m 2 . After a run-in stage, the effects of consuming three servings/day of yerba mate in boiled water during 8 weeks (mate stage) were compared with an isotonic drink during the same time (control stage). Along the study, polyphenol rich foods were restricted. At the beginning and the end of each intervention, urine and blood samples were collected. Dietary records and physical activity questionnaires were completed in each stage. Glucose was analyzed using a colorimetric kit (Sprinreact), and insulin, glucagon, C-peptide, glucose-dependent insulinotropic polypeptide (GIP), glucagon-like peptide-1 (GLP-1), plasminogen activator inhibitor-1 (PAI-1), resistin and visfatin were analyzed using Bio-Rad Multiplex Diabetes kits on Bio-Plex MAGPIX system. Results were statistically studied using a mix model with repeated measures and a Bonferroni test within each group (SPSS 23.0). Nutrient intake and physical activitiy did not show changes along the study. In contrast, fasting levels of glucose, insulin, glucagon, and GLP-1 significantly decreased after the mate stage, showing glucagon a significant yerba mate*group interaction. Attending to these results, it may be concluded that sustained consumption of yerba mate may prevent type 2 diabetes. These outcomes indicate that the effects of yerba mate in pre-diabetes and T2DM subjects are worth further studying. Funded by the Spanish State Research Agency, projects AGL2010-18269 and AGL2015-69986-R
Functionally distinct roles for glycosylation of alpha and beta integrin chains in cell-matrix interactions. (1993)

Laminin interaction with gp120/140, a B16-F10 laminin-binding protein immunologically related to alpha 6 beta 1 integrin, has been shown to be dependent on oligosaccharides from both ligand and receptor. Lectin analysis of gp120/140 led to the conclusion that this integrin is a sialoglycoprotein bearing mainly complex antennary structures. By means of exoglycosidase treatment, it was possible to identify alpha-galactosyl residues on the integrin alpha chain as the laminin-binding determinants. These residues are involved in cell adhesion to laminin. On the other hand, beta-chain complex antennary structures, whose synthesis could be inhibited by swainsonine, were associated with cell spreading rather than cell adhesion. Thus, it was possible to modulate integrin-mediated cell adhesion and spreading through changes in the glycosylation state of integrin alpha and beta chains.
Development of a Fiber-Optic Optical Coherence Tomography Probe for Intraocular Use (2016)

The ability of this new 23-G OCT probe to obtain images of intraoperative manipulations from the most peripheral tissues in animal and patient eyes suggests that it could enable surgeons to make better decisions during the course of intraocular surgery.
Homology of the amyloid beta protein precursor in monkey and human supports a primate model for beta amyloidosis in Alzheimer's disease. (1991)

Progressive cerebral deposition of the amyloid beta-protein (A beta P) occurs in Alzheimer's disease and during aging of certain mammals (eg, human, monkey, dog) but not others (eg, mouse, rat). The authors cloned and sequenced a full-length cDNA encoding the beta-protein precursor (beta APP) of cynomolgus monkey. The predicted amino acid sequence of the 695-residue protein is completely homologous to that of human. The alternatively transcribed exons encoding the Kunitz protease inhibitor region in monkey were cloned, showing only a single conservative amino acid substitution in the 751-residue form of beta APP and four substitutions in beta APP770. Immunoblots of cerebral cortex with antibodies to various beta APP domains showed highly similar beta APP polypeptides in human and monkey, in contrast to those of mouse and rat. The latter differences reflect sequence substitutions, transcriptional regulation, and possibly post-translational modifications that may decrease the amyloidogenic potential of rodent beta APP. Immunocytochemistry of aged cynomolgus brain showed A beta P deposited in blood vessels and diffuse and compacted plaques closely resembling those of humans, and the presence of beta-amyloid-associated proteins (alpha 1-antichymotrypsin; complements C1q and C3c) characteristic of A beta P deposits in Alzheimer's disease. The authors' findings demonstrate that cynomolgus monkey and perhaps other primates provide a close animal model for examining the early transcriptional and post-translational processing of beta APP that precedes A beta P deposition during aging and in Alzheimer's disease.
On the retrieving of forest stem volume from VHF SAR data: observation and modeling (2001)

Investigates the relationships between VHF data and forest biomass using data acquired by the airborne imaging radar CARABAS over two different pine plantation forests in southern France. Data are analyzed using detailed ground truth measurements available on both sites. The backscattering coefficient is strongly correlated to characteristics of the tree trunk. Signal saturation is not observed up to 900 m/sup 3//ha. However, the sensitivity to the volume is high in the range of 0-500 m/sup 3//ha (e.g. 1 to 1.5 dB for 50 m/sup 3/ /ha), whereas it is reduced beyond 500 m/sup 3//ha (<0.5 dB for 50 m/sup 3//ha). The experimental analysis is supported by theoretical modeling using a coherent backscatter model based on the distorted Born approximation coupled with a tree growth model giving a fine and precise description of the trees at both sites. The modeling results show that the trunk is the main scatterer, but that, when the branch dimensions are not insignificant compared to trunk dimension, branch scattering needs to be accounted for. However, since the two species under study are both coniferous, branch dimensions are relatively small compared to trunk dimension. This explains no significant differences observed in the backscatter behavior between both sites, except for mature stands with low stem density. Finally, the effect of topography is investigated both experimentally, using a digital elevation model, and theoretically with the coherent model. The loss of sensitivity to stem volume due to slope is clearly demonstrated and explained by the decrease of the dihedral trunk-ground interaction as the slope increases.
Spontaneous parametric down conversion in a nanophotonic waveguide (2007)

Recently, we verified that spontaneous parametric down conversion (SPDC) is enhanced in a waveguide, in agreement with theory showing an inverse dependence on mode confinement [1]. Here we investigate highly-confined nanophotonic waveguides designed to maximize the SPDC rate. A theory modified to include highly-confined waveguides is used to calculate the spectral width and pair generation rates in a sample system. Pair generation rates exceeding 10(9)/sec/nm/mW are predicted for periodically-poled KTP (PPKTP) nanophotonic waveguides. This results in an enhancement of the downconverted signal power greater than 45x that of low-index-contrast PPKTP waveguides and greater than 6500x that of bulk PPKTP crystals.
Antiangiogenic Effect of Dual/Selective α<sub>5</sub>β<sub>1</sub>/α<sub>v</sub>β<sub>3</sub> Integrin Antagonists Designed on Partially Modified Retro-Inverso Cyclotetrapeptide Mimetics (2009)

Recent evidence highlighted the role of alpha(5)beta(1) integrin in angiogenesis and in regulating alpha(v)beta(3) integrin function. As a consequence, selective alpha(5)beta(1) integrin inhibitors or dual alpha(5)beta(1)/alpha(v)beta(3) integrin inhibitors are considered promising candidates for the development of cancer therapeutic agents. In this paper, we describe the synthesis and pharmacological characterization of a minilibrary of cyclotetrapeptide mimetics containing a PMRI Arg-Gly-Asp sequence. In particular, c[(R)-betaPhepsi(NHCO)Asppsi(NHCO)Gly-Arg] (3) displayed a good activity in inhibiting the alpha(v)beta(3) integrin-mediated cell adhesion of fibronectin or vitronectin, as well as the adhesion of fibronectin to the alpha(5)beta(1) integrin. Interestingly, the diastereomeric compound c[(S)-betaPhepsi(NHCO)Asppsi(NHCO)Gly-Arg] (2) maintained a good efficacy in inhibiting alpha(5)beta(1) integrin while gaining a certain selectivity over alpha(v)beta(3) integrin. These two integrin antagonists significantly inhibited bFGF-induced human endothelial cell tube formation at submicromolar concentrations. Conformational analysis and Molecular Docking calculations suggest that the different alpha(5)beta(1) versus alpha(v)beta(3) selectivity of 2 and 3 can be rationalized on the basis of the alternative display of the aromatic side chain adjacent to Asp.
Neural network application to comprehensive engine diagnostics (2003)

The authors examine the application of trainable classification systems to the problem of diagnosing faults in engines at the manufacturing plant. It is demonstrated how a combination of conventional statistical processing methods and neural networks can be combined to create a classifier system for engine diagnostics. The most significant computational effort is required for the principal component analysis and to properly develop the hard-shell classifiers using data sets augmented with Monte Carlo methods. Once these procedures are carried out, the application of neural networks to the data set to obtain the trainable classifier is quite straightforward.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">></ETX>
Interim Results of a Multicenter Trial with the New Electronic Subretinal Implant Alpha AMS in 15 Patients Blind from Inherited Retinal Degenerations (2017)

<b>Purpose:</b> We assessed the safety and efficacy of a technically advanced subretinal electronic implant, RETINA IMPLANT Alpha AMS, in end stage retinal degeneration in an interim analysis of two ongoing prospective clinical trials. The purpose of this article is to describe the interim functional results (efficacy). <b>Methods:</b> The subretinal visual prosthesis RETINA IMPLANT Alpha AMS (Retina Implant AG, Reutlingen, Germany) was implanted in 15 blind patients with hereditary retinal degenerations at four study sites with a follow-up period of 12 months (www.clinicaltrials.gov NCT01024803 and NCT02720640). Functional outcome measures included (1) screen-based standardized 2- or 4-alternative forced-choice (AFC) tests of light perception, light localization, grating detection (basic grating acuity (BaGA) test), and Landolt C-rings; (2) gray level discrimination; (3) performance during activities of daily living (ADL-table tasks). <b>Results:</b> Implant-mediated light perception was observed in 13/15 patients. During the observation period implant mediated localization of visual targets was possible in 13/15 patients. Correct grating detection was achieved for spatial frequencies of 0.1 cpd (cycles per degree) in 4/15; 0.33 cpd in 3/15; 0.66 cpd in 2/15; 1.0 cpd in 2/15 and 3.3 cpd in 1/15 patients. In two patients visual acuity (VA) assessed with Landolt C- rings was 20/546 and 20/1111. Of 6 possible gray levels on average 4.6 ± 0.8 (mean ± <i>SD, n</i> = 10) were discerned. Improvements (power ON vs. OFF) of ADL table tasks were measured in 13/15 patients. Overall, results were stable during the observation period. Serious adverse events (SAEs) were reported in 4 patients: 2 movements of the implant, readjusted in a second surgery; 4 conjunctival erosion/dehiscence, successfully treated; 1 pain event around the coil, successfully treated; 1 partial reduction of silicone oil tamponade leading to distorted vision (silicon oil successfully refilled). The majority of adverse events (AEs) were transient and mostly of mild to moderate intensity. <b>Conclusions:</b> Psychophysical and subjective data show that RETINA IMPLANT Alpha AMS is reliable, well tolerated and can restore limited visual functions in blind patients with degenerations of the outer retina. Compared with the previous implant Alpha IMS, longevity of the new implant Alpha AMS has been considerably improved. Alpha AMS has meanwhile been certified as a commercially available medical device, reimbursed in Germany by the public health system.
Long noncoding RNAs and the genetics of cancer (2013)

Cancer is a disease of aberrant gene expression. While the genetic causes of cancer have been intensively studied, it is becoming evident that a large proportion of cancer susceptibility cannot be attributed to variation in protein-coding sequences. This is highlighted by genome-wide association studies in cancer that reveal that more than 80% of cancer-associated SNPs occur in noncoding regions of the genome. In this review, we posit that a significant fraction of the genetic aetiology of cancer is exacted by noncoding regulatory sequences, particularly by long noncoding RNAs (lncRNAs). Recent studies indicate that several cancer risk loci are transcribed into lncRNAs and these transcripts play key roles in tumorigenesis. We discuss the epigenetic and other mechanisms through which lncRNAs function and how they contribute to each stage of cancer progression, understanding of which will be crucial for realising new opportunities in cancer diagnosis and treatment. Long noncoding RNAs play important roles in almost every aspect of cell biology from nuclear organisation and epigenetic regulation to post-transcriptional regulation and splicing, and we link these processes to the hallmarks and genetics of cancer. Finally, we highlight recent progress and future potential in the application of lncRNAs as therapeutic targets and diagnostic markers.
Fast Recovery from Link Failures Using Resilient Routing Layers (2005)

We present a novel scheme for network recovery, named resilient routing layers (RRL). Our proposed scheme is based on calculating fully connected topology subsets, termed layers, which are used to forward traffic in case of a network failure. For the purpose of this work, the layers are created to protect against link failures only. RRL keeps pre-calculated backup routing information in the network stations. This allows local response to network failures, which gives recovery in the order of milliseconds. The main strengths of our approach are its flexibility, as it is independent of the network technology used, and its simplicity, as it offers the network operator a simple and coherent view of the resources available after a link failure. We also show that our scheme scales well for networks of several hundred nodes.
Buprenorphine/naloxone as a promising therapeutic option for opioid abusing patients with chronic pain: Reduction of pain, opioid withdrawal symptoms, and abuse liability of oral oxycodone (2013)

Few studies have examined abuse of prescription opioids among individuals with chronic pain under buprenorphine/naloxone (Bup/Nx) maintenance. The current 7-week inpatient study assessed oral oxycodone self-administration by patients with chronic pain who had a history of opioid abuse. Participants (n=25) were transitioned from their preadmission prescribed opioid to Bup/Nx. All of the participants were tested under each of the sublingual Bup/Nx maintenance doses (2/0.5, 8/2 or 16/4 mg) in random order. During each maintenance period, participants could self-administer oxycodone orally (0, 10, 20, 40 or 60 mg prescription opioids) or receive money during laboratory sessions. Drug choice (percentage) was the primary dependent variable. Subjective ratings of clinical pain and withdrawal symptoms also were measured. Mann-Whitney tests compared percentage of drug choice for each active oxycodone dose to placebo. Logistic regression analyses identified correlates of oxycodone preference, defined as 60% or greater choice of oxycodone compared to money. Pain was significantly reduced while participants were maintained on Bup/Nx compared to preadmission ratings. No differences in percentage drug choice were observed between the active oxycodone doses and placebo under each Bup/Nx maintenance dose. However, factors associated with oxycodone preference were lower Bup/Nx maintenance dose, more withdrawal symptoms and more pain. These data suggest that Bup/Nx was effective in reducing pain and supplemental oxycodone use. Importantly, adequate management of pain and withdrawal symptoms by Bup/Nx may reduce oxycodone preference in this population.
The CD85J/Leukocyte Inhibitory Receptor-1 Distinguishes between Conformed and β2-Microglobulin-Free HLA-G Molecules (2005)

For a proper development of the placenta, maternal NK cells should not attack the fetal extravillous cytotrophoblast cells. This inhibition of maternal NK cells is partially mediated via the nonclassical MHC class I molecule HLA-G. Recently, we demonstrated that HLA-G forms disulfide-linked high molecular complexes on the surface of transfected cells. In the present study, we demonstrate that HLA-G must associate with beta(2)m for its interaction with CD85J/leukocyte Ig-like receptor-1 (LIR-1). Although HLA-G free H chain complexes are expressed on the surface, they are not recognized and possibly interfere with CD85J/LIR-1 and HLA-G interaction. The formation of these complexes on the cell surface might represent a novel mechanism developed specifically by the HLA-G protein aimed to control the efficiency of the CD85J/LIR-1-mediated inhibition. We also show that endogenous HLA-G complexes are expressed on the cell surface. These findings provide novel insights into the delicate interaction between extravillous cytotrophoblast cells and NK cells in the decidua.
Amylolytic activity of selected species of ruminal bacteria (1988)

A variety of species of ruminal bacteria were screened for the ability to grow in starch-containing medium and produce amylase. Of those tested, the highest levels of amylase were produced by Streptococcus bovis JB1 and Ruminobacter amylophilus H18. Other strains that grew well on starch and produced amylase included Butyrivibrio fibrisolvens A38 and 49 and Bacteroides ruminicola 23 and B14. Varying the carbohydrate source provided for growth resulted in changes in the growth rate and level of amylase produced by these strains. All strains grew rapidly in starch-containing medium, and the rates of growth were generally more rapid than those observed for maltose-grown cultures. For S. bovis JB1, B. ruminicola 23 and B14, and B. fibrisolvens 49 and A38, amylase was produced when growth was on maltose or starch, but this activity was greatly reduced in glucose-grown cultures. The distribution of amylolytic activity between cellular and extracellular fractions was sometimes affected by the carbohydrate provided for growth. If S. bovis JB1 and B. fibrisolvens 49 were grown on starch, amylase was largely associated with cell pellets; however, if grown on maltose these strains produced activities that were almost entirely present in the extracellular fluid fractions. Although not as dramatic, a similar shift in the location of amylase activities was noted for the two B. ruminicola strains when grown on the same substrates. Growth on maltose or starch had little influence on either the predominantly cell-associated activity of B. fibrisolvens A38 or the activity of R. amylophilus H18, which was equally divided between cell pellet and extracellular fluid fractions.(ABSTRACT TRUNCATED AT 250 WORDS)