gebhart/patrepeval huggingface dataset:
JDotter: a Java interface to multiple dotplots generated by dotter (2004)

Installation instructions, the User's Manual, screenshots and examples are available at the JDotter home page http://athena.bioc.uvic.ca/pbr/jdotter/. The software and source code is free for non-commercial applications.
AUTOMATED ESSAY SCORING WITH E‐RATER® V.2.0 (2004)

ABSTRACT The e‐rater® system has been used by ETS for automated essay scoring since 1999. This paper describes a new version of e‐rater (v.2.0) that differs from the previous one (v.1.3) with regard to the feature set and model building approach. The paper describes the new version, compares the new and previous versions in terms of performance, and presents evidence on the validity and reliability of scores produced by the new version.
EVALUATION OF ANTI-INFLAMMATORY ACTIVITY OF NYCTANTHES ARBOR-TRISTIS LEAVES (2013)

Background of study: Traditional medicine practitioners use leaf extract of Nyctanthes arbor-tristis for symptomatic relief of arthritis. Previous studies indicate the anti-inflammatory effect of flowers and seeds of the extract.
Objective: The objective of the present study was to investigate the anti-inflammatory effect of leaves of Nyctanthes arbor-tristis linn in rodents.
Research Methodology: The leaf extract was prepared by “maceration” with 90% ethanol at room temperature, filtered and the filtrate evaporated to dryness. The extract was suspended in Tween 80 and used per orally in rodents. Acute anti-inflammatory activity of the extract at doses 200, 400 mg/kg was evaluated in rats using carrageenan induced paw edema. Chronic anti-inflammatory activity was tested using cotton pellet granuloma.
Results: The leaf extract of Nyctanthes arbor-tristis produced significant acute and chronic anti-inflammatory activity at 200 mg/kg and 400 mg/kg doses. When compared to the standard drugDiclofenac sodium 10mg/kgthe acute effect of the extract was comparable but the chronic effect was significantly less at 400mg/kg dose.
Conclusion: This study demonstrates the potential acute and chronic anti-inflammatory effectof Nyctanthes arbor-tristis leaves which supports the claim of traditional medicine practitioners.
IFN-γ–related mRNA profile predicts clinical response to PD-1 blockade (2017)

Programmed death-1-directed (PD-1-directed) immune checkpoint blockade results in durable antitumor activity in many advanced malignancies. Recent studies suggest that IFN-γ is a critical driver of programmed death ligand-1 (PD-L1) expression in cancer and host cells, and baseline intratumoral T cell infiltration may improve response likelihood to anti-PD-1 therapies, including pembrolizumab. However, whether quantifying T cell-inflamed microenvironment is a useful pan-tumor determinant of PD-1-directed therapy response has not been rigorously evaluated. Here, we analyzed gene expression profiles (GEPs) using RNA from baseline tumor samples of pembrolizumab-treated patients. We identified immune-related signatures correlating with clinical benefit using a learn-and-confirm paradigm based on data from different clinical studies of pembrolizumab, starting with a small pilot of 19 melanoma patients and eventually defining a pan-tumor T cell-inflamed GEP in 220 patients with 9 cancers. Predictive value was independently confirmed and compared with that of PD-L1 immunohistochemistry in 96 patients with head and neck squamous cell carcinoma. The T cell-inflamed GEP contained IFN-γ-responsive genes related to antigen presentation, chemokine expression, cytotoxic activity, and adaptive immune resistance, and these features were necessary, but not always sufficient, for clinical benefit. The T cell-inflamed GEP has been developed into a clinical-grade assay that is currently being evaluated in ongoing pembrolizumab trials.
Therapeutic targeting of epidermal growth factor receptor in human cancer: successes and limitations (2011)

Epidermal growth factor receptor (EGFR) is one of the most commonly altered genes in human cancer by way of over-expression, amplification, and mutation. Targeted inhibition of EGFR activity suppresses signal transduction pathways which control tumor cell growth, proliferation, and resistance to apoptosis. Small molecule tyrosine kinase inhibitors and monoclonal antibodies are among the most common EGFR-targeting agents and have been used clinically for treating various malignancies. This review discusses the successes and challenges of targeting EGFR in human cancer. The genetic alterations of EGFR tend to occur more often in some solid tumors than others, as do the mechanisms of resistance to targeted inhibition. The clinical and basic science experiences with these agents thus far have important implications for the future of therapeutic targeting of EGFR.
Mutagenesis and stress responses induced in Escherichia coli by hydrogen peroxide (1987)

Killing of Escherichia coli by hydrogen peroxide proceeds by two modes. Mode one killing appears to be due to DNA damage, has a maximum near 1 to 3 mM H2O2, and requires active metabolism during exposure. Mode two killing is due to uncharacterized damage, occurs in the absence of metabolism, and exhibits a classical multiple-order dose-response curve up to at least 50 mM H2O2 (J. A. Imlay and S. Linn, J. Bacteriol. 166:519-527, 1986). H2O2 induces the SOS response in proportion to the degree of killing by the mode one pathway, i.e., induction is maximal after exposure to 1 to 3 mM H2O2. Mutant strains that cannot induce the SOS regulon are hypersensitive to peroxide. Analysis of the sensitivities of mutants that are deficient in individual SOS-regulated functions suggested that the SOS-mediated protection is due to the enhanced synthesis of recA protein, which is rate limiting for recombinational DNA repair. Specifically, strains wholly blocked in both SOS induction and DNA recombination were no more sensitive than mutants that are blocked in only one of these two functions, and strains carrying mutations in uvrA, -B, -C, or -D, sfiA, umuC or -D, ssb, or dinA, -B, -D, -F, -G, -H, -I, or -J were not abnormally sensitive to killing by H2O2. After exposure to H2O2, mutagenesis and filamentation also occurred with the dose response characteristic of SOS induction and mode one killing, but these responses were not dependent on the lexA-regulated umuC mutagenesis or sfiA filamentation functions, respectively. Exposure of E. coli to H2O2 also resulted in the induction of functions under control of the oxyR regulon that enhance the scavenging of active oxygen species, thereby reducing the sensitivity to H2O2. Catalase levels increased 10-fold during this induction, and katE katG mutants, which totally lack catalase, while not abnormally sensitive to killing by H2O2 in the naive state, did not exhibit the induced protective response. Protection equal to that observed during oxyR induction could be achieved by the addition of catalase to cultures of naive cells in an amount equivalent to that induced by the oxyR response. Thus, the induction of catalase is necessary and sufficient for the observed oxyR-directed resistance to killing by H2O2. Although superoxide dismutase appeared to be uninvolved in this enhanced protective response, sodA sodB mutants, which totally lack superoxide dismutase, were especially sensitive to mode one killing by H2O2 in the naive state. gshB mutants, which lack glutathione, were not abnormally sensitive to killing by H2O2.
Quantitative multispectral biosensing and 1D imaging using quasi-3D plasmonic crystals (2006)

We developed a class of quasi-3D plasmonic crystal that consists of multilayered, regular arrays of subwavelength metal nanostructures. The complex, highly sensitive structure of the optical transmission spectra of these crystals makes them especially well suited for sensing applications. Coupled with quantitative electrodynamics modeling of their optical response, they enable full multiwavelength spectroscopic detection of molecular binding events with sensitivities that correspond to small fractions of a monolayer. The high degree of spatial uniformity of the crystals, formed by a soft nanoimprint technique, provides the ability to image binding events over large areas with micrometer spatial resolution. These features, together with compact form factors, low-cost fabrication procedures, simple readout apparatus, and ability for direct integration into microfluidic networks and arrays, suggest promise for these devices in label-free bioanalytical detection systems.
Simulated exchange values and ecosystem accounting (2015)

This paper discusses the Simulated Exchange Value method, a practical method to estimate values for goods and services currently outside of the market in a consistent manner to market based figures considered in national accounts. The method proposes to simulate, in a partial equilibrium context, the price that would occur if a good or service outside of the market, such as free access recreation in forests, were internalized. The method takes into account the demand, estimated using non-market valuation techniques, the supply and the market structure. The discussion covers the case of a linear demand and the case where the demand is estimated using discrete choice methods. The paper applies the method to free access recreation in the forests of Andalusia, in the South of Spain, and compares the results to those obtained using Hicksian variations.
Preliminary Studies of the Impact of CXCL12 on the Foreign Body Reaction to Pancreatic Islets Microencapsulated in Alginate in Nonhuman Primates (2019)

Inclusion of CXCL12 in alginate microbeads minimized localized FBR. The NHP autologous islet implant model had limited utility for excluding inflammatory/immune responses to implanted islets because of the complexity of pancreatic surgery (hemipancreatectomy) before transplantation and the need to microencapsulate and transplant encapsulated autologous islets immediately after pancreatectomy and islet isolation.
Novel Polymer-Supported Trialkylsilanes and Their Use in Solid-Phase Organic Synthesis (1998)

ADVERTISEMENT RETURN TO ISSUEPREVNoteNEXTNovel Polymer-Supported Trialkylsilanes and Their Use in Solid-Phase Organic SynthesisYonghan Hu, John A. Porco,, Jeff W. Labadie, Owen W. Gooding, and Barry M. TrostView Author Information Argonaut Technologies, 887 G Industrial Road, San Carlos, California 94070 Department of Chemistry, Stanford University, Stanford, California 94305 Cite this: J. Org. Chem. 1998, 63, 13, 4518–4521Publication Date (Web):May 30, 1998Publication History Received22 January 1998Published online30 May 1998Published inissue 1 June 1998https://pubs.acs.org/doi/10.1021/jo9801115https://doi.org/10.1021/jo9801115brief-reportACS PublicationsCopyright © 1998 American Chemical SocietyRequest reuse permissionsArticle Views824Altmetric-Citations80LEARN 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 SUBJECTS:Alcohols,Anions,Aromatic compounds,Hydrocarbons,Organic polymers Get e-Alerts
New Poly(phenyleneethynylene)s with Cationic, Facially Amphiphilic Structures (2002)

Polymers based on meta substituted phenylene ethylene are prepared with patterned polar and nonpolar groups to favor an extended conformation. These polymers were characterized at the air-water interface by Langmuir techniques and found to form stable monolayers with an extended conformation based on molecular models. In addition, these polymers show phospholipid membrane activity as measured by induced leakage of calcein from large unilamellar vesicles. These polymers represent new facially amphiphilic structures which are cationic in nature and surface active.
Development of the Radiocarbon Calibration Program (2001)

This paper highlights some of the main developments to the radiocarbon calibration program, OxCal. In addition to many cosmetic changes, the latest version of OxCal uses some different algorithms for the treatment of multiple phases. The theoretical framework behind these is discussed and some model calculations demonstrated. Significant changes have also been made to the sampling algorithms used which improve the convergence of the Bayesian analysis. The convergence itself is also reported in a more comprehensive way so that problems can be traced to specific parts of the model. The use of convergence data, and other techniques for testing the implications of particular models, are described.
A New Unnatural Base Pair System between Fluorophore and Quencher Base Analogues for Nucleic Acid-Based Imaging Technology (2010)

In the development of orthogonal extra base pairs for expanding the genetic alphabet, we created novel, unnatural base pairs between fluorophore and quencher nucleobase analogues. We found that the nucleobase analogue, 2-nitropyrrole (denoted by Pn), and its 4-substitutions, such as 2-nitro-4-propynylpyrrole (Px) and 4-[3-(6-aminohexanamido)-1-propynyl]-2-nitropyrrole (NH(2)-hx-Px), act as fluorescence quenchers. The Pn and Px bases specifically pair with their pairing partner, 7-(2,2'-bithien-5-yl)imidazo[4,5-b]pyridine (Dss), which is strongly fluorescent. Thus, these unnatural Dss-Pn and Dss-Px base pairs function as reporter-quencher base pairs, and are complementarily incorporated into DNA by polymerase reactions as a third base pair in combination with the natural A-T and G-C pairs. Due to the static contact quenching, the Pn and Px quencher bases significantly decreased the fluorescence intensity of Dss by the unnatural base pairings in DNA duplexes. In addition, the Dss-Px pair exhibited high efficiency and selectivity in PCR amplification. Thus, this new unnatural base pair system would be suitable for detection methods of target nucleic acid sequences, and here we demonstrated the applications of the Dss-Pn and Dss-Px pairs as molecular beacons and in real-time PCR. The genetic alphabet expansion system with the replicable, unnatural fluorophore-quencher base pair will be a useful tool for sensing and diagnostic applications, as well as an imaging tool for basic research.
Dynamic knobs for responsive power-aware computing (2011)

We present PowerDial, a system for dynamically adapting application behavior to execute successfully in the face of load and power fluctuations. PowerDial transforms static configuration parameters into dynamic knobs that the PowerDial control system can manipulate to dynamically trade off the accuracy of the computation in return for reductions in the computational resources that the application requires to produce its results. These reductions translate directly into performance improvements and power savings.
Differential effects of blockade of CD28-B7 on the development of Th1 or Th2 effector cells in experimental leishmaniasis. (1994)

Infection of inbred strains of mice with Leishmania major is a well-characterized model for analysis of the development of effector CD4+ subsets of the Th1 and Th2 types in vivo. We co-administered a fusion protein, CTLA4Ig, that blocks the CD28-B7 costimulatory pathway important for optimal T cell activation, to assess the relative role for this pathway during maturation of Th1 and Th2 cells in vivo. Surprisingly, CTLA4Ig administered within the first week of infection completely abrogated progressive disease in susceptible BALB/c mice while having no effect on the protective immune response developed by resistant C57BL/6 mice. The protective effect in BALB/c mice was increasingly lost if administration of CTLA4Ig was delayed longer than 1 wk after infection. As in other protective interventions used in this model, control of infection was associated with down-regulation of IL-4 mRNA transcripts in lymph node cells recovered 5 wk after infection together with abrogation of IgE production and enhanced parasite-specific IgG2a relative to IgG1. Although a single dose of CTLA4Ig was protective, sustained delivery abolished the capacity of BALB/c mice to contain infection, suggesting that costimulation through this pathway is required at later stages of the immune response. Taken together, the data demonstrate that the priming of Th2 cells is more dependent upon the CD28-B7 pathway than the priming of Th1 cells, and suggest that the development of Th subsets in vivo may be influenced by limiting CD28-B7 costimulation.
Determination of electrical transport properties using a novel magnetic field-dependent Hall technique (1987)

A novel technique is presented for interpreting magnetic field-dependent Hall data at magnetic fields below the range at which Shubnikov–de Haas oscillations occur. The technique generates a ‘‘mobility spectrum’’ in which the maximum carrier density or maximum conductivity is determined as a continuous function of mobility. Examples of the use of the technique with synthetic data as well as data from HgCdTe and GaAs/AlGaAs samples are provided. Other uses of the procedure, including measurement of Fermi surface shapes and direct measurement of the distribution of relaxation times, are discussed.
Macromol. Rapid Commun. 9/2015 (2015)

Front Cover: Ln3+-based upconversion luminescence nanomaterials have brought enormous opportunities and challenges in numerous fields. Polymers play an irreplaceable role for constructing novel functional nanomaterials with various possible practical applications in the future. Here, the most recent progress in UCNPs/polymer-based nanohybrids as well as emerging applications such as displays, bioimaging, drug delivery, sensors, and anti-counterfeiting are highlighted. Further details can be found in the article by Z. Cheng and J. Lin* on page 790.
KRN7000, a novel immunomodulator, and its antitumor activities. (1995)

KRN7000, a compound with a novel alpha-galactosylceramide structure, showed potent tumor growth inhibitory activities in B16-bearing mice and markedly stimulated lymphocytic proliferation in allogeneic mixed leukocyte reaction, suggesting that KRN7000 is a biological response modifier. To confirm this suggestion, we examined the abilities of KRN7000 to enhance in vitro and in vivo natural killer (NK) activities, and found that KRN7000 enhanced in vitro and in vivo NK activities, and its potency on in vivo NK activity was much stronger than those of Poly I:C, which is a positive control, or the representative BRMs OK432 and Lentinan. In addition, since spleen cells intravenously treated with KRN7000 also showed potent cytotoxic activities against B16 and EL-4 cells, we evaluated the capability of KRN7000 to prolong the survival period of mice intravenously inoculated with B16 cells or mice intraperitoneally inoculated with EL-4 cells. In these models, KRN7000 (100 micrograms/kg) significantly prolonged the lifespan of mice, and its potency was stronger than that of Mitomycin C, a typical chemotherapeutic agent, in two models. These results demonstrate that KRN7000 would be a useful agent for cancer therapy.
Physicochemical processes for water quality control (1972)

Physicochemical processes for water quality contro , Physicochemical processes for water quality contro , کتابخانه دیجیتال جندی شاپور اهواز
Low Magnitude Mechanical Loading Is Osteogenic in Children With Disabling Conditions (2004)

Compliance was 44% (4.4 minutes per day), as determined by mean time on treatment (567.9 minutes) compared with expected time on treatment over the 6 months (1300 minutes). After 6 months, the mean change in proximal tibial vTBMD in children who stood on active devices was 6.27 mg/ml (+6.3%); in children who stood on placebo devices, vTBMD decreased by -9.45 mg/ml (-11.9%). Thus, the net benefit of treatment was +15.72 mg/ml (17.7%; p = 0.0033). In the spine, the net benefit of treatment, compared with placebo, was +6.72 mg/ml, (p = 0.14). Diaphyseal bone and muscle parameters did not show a response to treatment. The results of this pilot RCT have shown for the first time that low-magnitude, high-frequency mechanical stimuli are anabolic to trabecular bone in children, possibly by providing a surrogate for suppressed muscular activity in the disabled. Over the course of a longer treatment period, harnessing bone's sensitivity to these stimuli may provide a non-pharmacological treatment for bone fragility in children.
Chemical performance and high temperature characterization of micromachined chemical reactors (2002)

Chemical throughput, product distribution, and lifetime studies have been conducted in Si micromachined chemical reactors (microreactors) for catalytic partial oxidation reactions. Experiments using Pt-catalyzed NH/sub 3/ oxidation as model reaction show that conversion and selectivity behavior of conventional reactors can be reproduced in the microreactor. Highly flammable gases that explode in conventional reactors have been safely oxidized in the microreactor. Packaging and high-temperature materials degradation have been identified as technical challenges to commercial chemical production using microreactor systems.
Functional Expression of Two KvLQT1-related Potassium Channels Responsible for an Inherited Idiopathic Epilepsy (1998)

Benign familial neonatal convulsions (BFNC), a class of idiopathic generalized epilepsy, is an autosomal dominantly inherited disorder of newborns. BFNC has been linked to mutations in two putative K+ channel genes, KCNQ2 and KCNQ3. Amino acid sequence comparison reveals that both genes share strong homology to KvLQT1, the potassium channel encoded by KCNQ1, which is responsible for over 50% of inherited long QT syndrome. Here we describe the cloning, functional expression, and characterization of K+ channels encoded by KCNQ2 and KCNQ3 cDNAs. Individually, expression of KCNQ2 or KCNQ3 in Xenopus oocytes elicits voltage-gated, rapidly activating K+-selective currents similar to KCNQ1. However, unlike KCNQ1, KCNQ2 and KCNQ3 currents are not augmented by coexpression with the KCNQ1 beta subunit, KCNE1 (minK, IsK). Northern blot analyses reveal that KCNQ2 and KCNQ3 exhibit similar expression patterns in different regions within the brain. Interestingly, coexpression of KCNQ2 and KCNQ3 results in a substantial synergistic increase in current amplitude. Coexpression of KCNE1 with the two channels strongly suppressed current amplitude and slowed kinetics of activation. The pharmacological and biophysical properties of the K+ currents observed in the coinjected oocytes differ somewhat from those observed after injecting either KCNQ2 or KCNQ3 by itself. The functional interaction between KCNQ2 and KCNQ3 provides a framework for understanding how mutations in either channel can cause a form of idiopathic generalized epilepsy.