bluuebunny/crossref_metadata_2025_split huggingface dataset:
Development of a Multiplex Bead-Based Assay for Detection of Hepatitis C Virus
Authors: Fonseca Bruna P. F. , Marques Christiane F. S. , Nascimento Lílian D. , Mello Marcelle B. , Silva Leila B. R. , Rubim Nara M. , Foti Leonardo , Silva Edimilson D. , Ferreira Antonio G. P. , Krieger Marco A. 
Published: February 2011

ABSTRACTHepatitis C virus (HCV) infection is a major burden to public health worldwide, affecting approximately 3% of the human population. Although HCV detection is currently based on reliable tests, the field of medical diagnostics has a growing need for inexpensive, accurate, and quick high-throughput assays. By using the recombinant HCV antigens NS3, NS4, NS5, and Combined, we describe a new bead-based multiplex test capable of detecting HCV infection in human serum samples. The first analysis, made in a singleplex format, showed that each antigen coupled to an individual bead set presented high-level responses for anti-HCV-positive reference serum pools and lower-level responses for the HCV-negative pools. Our next approach was to determine the sensitivity and specificity of each antigen by testing 93 HCV-positive and 93 HCV-negative sera. When assayed in the singleplex format, the NS3, NS4, and NS5 antigens presented lower sensitivity values (50.5%, 51.6%, and 55.9%, respectively) than did the Combined antigen, which presented a sensitivity of 93.5%. All antigens presented 100% specificity. These antigens were then multiplexed in a 4-plex assay, which resulted in increased sensitivity and specificity values, performing with 100% sensitivity and 100% specificity. The positive and negative predictive values for the 4-plex assay were 100%. Although preliminary, this 4-plex assay showed robust results that, aligned with its small-sample-volume requirements and also its cost- and time-effectiveness, make it a reasonable alternative to tests currently used for HCV screening of potentially infected individuals.
Comparison of Real-Time Multiplex Human Papillomavirus (HPV) PCR Assays with the Linear Array HPV Genotyping PCR Assay and Influence of DNA Extraction Method on HPV Detection
Authors: Roberts Christine C. , Swoyer Ryan , Bryan Janine T. , Taddeo Frank J. 
Published: February 2011

ABSTRACT
Real-time human papillomavirus (HPV) type-specific multiplex PCR assays were developed to detect HPV DNA in specimens collected for the efficacy determination of the quadrivalent HPV (type 6, 11, 16, and 18) L1 virus-like particle (VLP) vaccine (Gardasil). We evaluated the concordance between type-specific multiplex HPV PCR and the widely used, commercially available Roche Linear Array genotyping PCR assay. Female genital swab specimens were tested for the presence of L1, E6, and E7 sequences of HPV type 6 (HPV6), HPV11, HPV16, HPV18, HPV31, HPV45, HPV52, and HPV58 and E6 and E7 sequences of HPV33, HPV35, HPV39, HPV51, HPV56, and HPV59 in type- and gene-specific real-time multiplex PCR assays. Specimens were also tested for the presence of L1 sequences using two versions of the Roche Linear Array genotyping assay. Measures of concordance of a modified version of the Linear Array and the standard Linear Array PCR assay were evaluated. With specimen DNA extraction using the Qiagen Spin blood kit held as the constant, multiplex PCR assays detect more HPV-positive specimens for the 14 HPV types common to both than either version of the Linear Array HPV genotyping assay. Type-specific agreements between the assays were good, at least 0.838, but were often driven by negative agreement in HPV types with low prevalence, as evidenced by reduced proportions of positive agreement. Overall HPV status agreements ranged from 0.615 for multiplex PCR and standard Linear Array to 0.881 for multiplex PCR and modified Linear Array. An alternate DNA extraction technique, that used by the Qiagen MinElute kit, impacted subsequent HPV detection in both the multiplex PCR and Linear Array assays.
Characterization of a New Disease Syndrome Associated with Porcine Circovirus Type 2 in Previously Vaccinated Herds
Authors: Cino-Ozuna Ada G. , Henry Steven , Hesse Richard , Nietfeld Jerome C. , Bai Jianfa , Scott H. Morgan , Rowland Raymond R. R. 
Published: February 2011

ABSTRACT
Porcine circovirus-associated disease (PCVAD) encompasses a group of wasting syndromes linked to porcine circovirus type 2 (PCV2). This paper describes a new PCV2 disease syndrome, called acute pulmonary edema (APE), which, unlike other PCVAD syndromes, has a peracute onset and is associated with herds vaccinated for PCV2.
Treponema-Specific Tests for Serodiagnosis of Syphilis: Comparative Evaluation of Seven Assays
Authors: Binnicker M. J. , Jespersen D. J. , Rollins L. O. 
Published: February 2011

ABSTRACT

The diagnosis of syphilis is challenging and often relies on serologic tests to detect treponemal or nontreponemal antibodies. Recently, the Centers for Disease Control and Prevention and the Association of Public Health Laboratories proposed an update to the syphilis serology testing algorithm, in which serum samples are first tested using a treponema-specific test and positive samples are analyzed with a nontreponemal assay. The goal of this study was to compare the performance of seven treponemal assays (BioPlex 2200 syphilis IgG [Bio-Rad, Hercules, CA], fluorescent treponemal antibody [FTA] assay [Zeus Scientific, Raritan, NJ],
Treponema pallidum
particle agglutination [TP-PA; Fujirebio Diagnostics, Malvern, PA], Trep-Sure enzyme immunoassay [EIA; Phoenix Biotech, Oakville, Ontario, Canada], Trep-Chek EIA [Phoenix Biotech], Trep-ID EIA [Phoenix Biotech], and Treponema ViraBlot IgG [Viramed Biotech AG, Planegg, Germany]) using serum samples (
n
= 303) submitted to our reference laboratory. In addition to testing with these 7 assays, all samples were tested by a rapid plasma reagin (RPR) assay and a treponemal IgM Western blot assay (Viramed ViraBlot). Compared to the FTA assay as the gold standard, the evaluated treponemal tests demonstrated comparable levels of performance, with percent agreement ranging from 95.4% (95% confidence interval, 92.3 to 97.3) for the Trep-Sure EIA to 98.4% (96.1 to 99.4) for the Trep-ID EIA. Compared to a “consensus of the test panel” (defined as at least 4 of 7 treponemal tests being in agreement), the percent agreement ranged from 95.7% (92.7 to 97.5) for Trep-Sure to 99.3% (97.5 to 99.9) for Trep-ID. These data may assist clinical laboratories that are considering implementing a treponemal test for screening or confirmatory purposes.
Unique Spectrum of Activity of Prosimian TRIM5α against Exogenous and Endogenous Retroviruses
Authors: Rahm Nadia , Yap Melvyn , Snoeck Joke , Zoete Vincent , Muñoz Miguel , Radespiel Ute , Zimmermann Elke , Michielin Olivier , Stoye Jonathan P. , Ciuffi Angela , Telenti Amalio 
Published: February 2011

ABSTRACT
Lentiviruses, the genus of retrovirus that includes HIV-1, rarely endogenize. Some lemurs uniquely possess an endogenous lentivirus called PSIV (“prosimian immunodeficiency virus”). Thus, lemurs provide the opportunity to study the activity of host defense factors, such as TRIM5α, in the setting of germ line invasion. We characterized the activities of TRIM5α proteins from two distant lemurs against exogenous retroviruses and a chimeric PSIV. TRIM5α from gray mouse lemur, which carries PSIV in its genome, exhibited the narrowest restriction activity. One allelic variant of gray mouse lemur TRIM5α restricted only N-tropic murine leukemia virus (N-MLV), while a second variant restricted N-MLV and, uniquely, B-tropic MLV (B-MLV); both variants poorly blocked PSIV. In contrast, TRIM5α from ring-tailed lemur, which does not contain PSIV in its genome, revealed one of the broadest antiviral activities reported to date against lentiviruses, including PSIV. Investigation into the antiviral specificity of ring-tailed lemur TRIM5α demonstrated a major contribution of a 32-amino-acid expansion in variable region 2 (v2) of the B30.2/SPRY domain to the breadth of restriction. Data on lemur TRIM5α and the prediction of ancestral simian sequences hint at an evolutionary scenario where antiretroviral specificity is prominently defined by the lineage-specific expansion of the variable loops of B30.2/SPRY.
3D seismic geomorphology and sedimentology of the Chalk Group, southern Danish North Sea
Authors: Back Stefan , Van Gent Heijn , Reuning Lars , Grötsch Jürgen , Niederau Jan , Kukla Peter 
Published: February 2011

Abstract:
Classically, the North Sea Chalk is interpreted as having been deposited under quiet, homogeneous pelagic conditions with local redeposition in slumps and slides. Recent observations of highly discontinuous reflection patterns on 2D and 3D seismic reflection data from the NW European Chalk Group have led to a revision of some general ideas of chalk deposition, with the suggestion that long-lived, contour-parallel bottom currents exerted a primary influence on the development of intra-chalk channels, drifts and mounds. This study proposes an alternative explanation for the formation of selected intra-chalk seismic and stratal discontinuities, interpreting these as being caused by gravity-driven processes that developed in response to intense syndepositional tectonics. Submarine mass-transport systems identified in the study area include large-scale slumps, slides, debris flows and turbidites. The last occur in sinuous channel systems flanked by large master levees, with the channel fill exhibiting well-developed secondary banks and overbanks on the outer bends of the channel thalweg. This first documentation of channelized density-flow deposits in the North Sea Chalk has important consequences for the interpretation and prediction of redeposited chalk units, emphasizing at the same time the strength of detailed 3D seismic discontinuity detection for subsurface sedimentary-systems analysis.
Origin of the Aves Ridge and Dutch–Venezuelan Antilles: interaction of the Cretaceous ‘Great Arc' and Caribbean–Colombian Oceanic Plateau?
Authors: Neill Iain , Kerr Andrew C. , Hastie Alan R. , Stanek Klaus-Peter , Millar Ian L. 
Published: February 2011

Abstract:

In this paper we reassess the geochronology and geochemistry of three dredge hauls from the SE corner of the Aves Ridge (Caribbean Sea) originally sampled in 1968 by Duke University's R.V.
Eastward
. Two hauls consist of light rare earth element-enriched granitoids with a U–Pb zircon emplacement age of 75.9 ± 0.7 Ma. A further haul contains mostly calc-alkaline island arc basaltic andesites of uncertain age. Petrological, trace element and isotopic constraints indicate that the granitoids have an oceanic crustal source and were formed by melting of the lower arc, oceanic or oceanic plateau crust. The mafic rocks formed by partial melting of an incompatible trace element-enriched mantle wedge, which was probably composed of mantle plume material. Both the dredged rocks and data from the Dutch–Venezuelan Antilles indicate a period of west-dipping underthrusting and subduction beneath, or close to, the Caribbean–Colombian Oceanic Plateau between
c
. 88 and
c
. 59 Ma, concurrent with collision of part of the plateau with northwestern South America. Constraints from the geochemistry and geochronology of offshore southern Caribbean arc and plateau rocks suggest that in the southern Caribbean there was no pre-existing west-dipping subduction system during formation of the Caribbean–Colombian Oceanic Plateau, whereas long-lived SW-dipping subduction in the northern Greater Antilles is more probable.

Supplementary material:

Sample details, major and trace element data (file 1), cathodoluminescence images of analysed zircons (file 2) and whole-rock standards (file 3) are available at
http://www.geolsoc.org.uk/SUP18438
.
Early Permian high-K calc-alkaline volcanic rocks from NW Inner Mongolia, North China: geochemistry, origin and tectonic implications
Authors: Zhang Xiaohui , Wilde Simon A. , Zhang Hongfu , Zhai Mingguo 
Published: February 2011

Abstract:
Knowledge of the characteristics of the extensive late Palaeozoic volcanic rocks across the northern China–Mongolia tract is essential for understanding the tectonic evolution and continental crustal growth in the Central Asian Orogenic Belt. This geochronological and geochemical study documents the Early Permian mafic and felsic volcanic rocks from northwestern Inner Mongolia. The mafic rocks form two magma series with distinctive geochemical characteristics; one showing large ion lithophile element (LILE) enrichment relative to high field strength elements (HFSE) and an asthenosphere-like Sr–Nd–Pb isotopic signature, and the other featuring an elevated Nb and lithospheric isotopic signature. This result indicates that two mantle source components are involved in the magma generation: the subduction-related metasomatized asthenosphere and lithospheric mantle. The felsic rocks show strong enrichment of LILE and light REE, depletion in HFSE, and indistinguishable isotopic compositions from mafic ones. Such features are consistent with partial melts of mixed sources composed of predominant juvenile basaltic underplates and minor ancient crustal materials. These mafic and felsic rocks constitute a post-subduction high-potassium calc-alkaline magmatic suite possibly under a geodynamic regime of Palaeo-Asian Ocean slab breakoff. This regime not only provides a feasible trigger for the flipping of subduction polarity in the Solonker suture zone, but also presents a favourable venue for vertical continental crustal growth.
Tectonic escape of a crustal fragment during the closure of the Rheic Ocean: U–Pb detrital zircon data from the Late Palaeozoic Pulo do Lobo and South Portuguese zones, southern Iberia
Authors: Braid James A. , Murphy J. Brendan , Quesada Cecilio , Mortensen Jim 
Published: February 2011

Abstract:
The Pulo do Lobo Zone, which crops out immediately north of the allochthonous South Portuguese Zone in southern Iberia, is classically interpreted as a polydeformed accretionary complex developed along the southern margin of the Gondwanan parautochthon (Ossa–Morena Zone), during the late Palaeozoic closure of the Rheic Ocean. This closure was a major event during the amalgamation of Pangaea. U–Pb laser ablation inductively coupled mass spectrometry dating of detrital zircons from late Palaeozoic Devono-Carboniferous clastic units in the South Portuguese Zone and Pulo do Lobo Zone yield contrasting age populations and attest to the exotic nature of both zones. Detrital zircons from the South Portuguese Zone display populations typical of detritus derived from either Gondwana (Ossa–Morena Zone), or peri-Gondwanan terranes. In contrast, rocks from the Pulo do Lobo Zone contain populations consistent with derivation from Baltica, Laurentia or recycled early Silurian deposits along the Laurentian margin. An example of one such deposit is the Southern Uplands terrane of the British Caledonides. Taken together, these data can be reconciled by a model involving tectonic transport of a crustal fragment that was laterally equivalent to the Southern Uplands terrane between the allochthonous South Portuguese Zone and Gondwana as a result of an early Devonian collision between an Iberian indenter with Laurussia.

Supplementary material:

U–Pb data tables, concordia diagrams, methods and representative back-scattered electron images are available at
http://www.geolsoc.org.uk/SUP18441
.
A Method for a Solution of Equilibrium Problem and Fixed Point Problem of a Nonexpansive Semigroup in Hilbert's Spaces
Authors: Buong Nguyen , Duong NguyenDinh 
Published: February 2011

AbstractWe introduce a viscosity approximation method for finding a common element of the set of solutions for an equilibrium problem involving a bifunction defined on a closed, convex subset and the set of fixed points for a nonexpansive semigroup on another one in Hilbert's spaces.
Is Research and Development Mispriced or Properly Risk Adjusted?
Authors: Ciftci Mustafa , Lev Baruch , Radhakrishnan Suresh 
Published: February 2011

Research has established that research and development (R&D)-intensive firms are characterized by substantial future risk-adjusted stock returns. The reasons for this phenomenon and its policy implications, however, are widely debated. Some attribute the excess returns to investors' systematic undervaluation of R&D firms and argue for improved disclosure to mitigate the mispricing. whereas others claim that the excess returns are just compensating for an R&D-speciftc risk factor We aim to provide insights into this controversy by examining R&D firms with substantial R&D outlays, that is, firms with R&D as an important ingredient in their strategy. Among such firms, we compare firms with high and low industry-adjusted R&D intensity. The high industry-adjusted R&D intensity firms are more likely to engage in basic research activities, whereas the low Indus try-adjusted R&D intensity firms are likely to mimic and extend existing technologies. As such, compared with the low industry-adjusted R&D intensity firms, the high industry-adjusted R&D intensity firms are likely to suffer from higher information asymmetry. We find that high industry-adjusted R&D intensity firms generate larger risk-adjusted returns compared with low industry-adjusted R&D intensity firms in the first five future years, after which the excess returns for the high group converge to those of the low group in the long run. This reversal in returns is consistent with undervaluation of high industry-adjusted R&D intensity firms. The long-term excess returns are positive for both the high and the low industry-adjusted R&D intensity firms, and these excess returns are partly attributable to information risk. We also show that the future excess returns of high industry-adjusted R&D intensity firms are lower for those firms who provide voluntary disclosure (earnings guidance) suggesting that the short-term undervaluation is likely due to mispricing.
An innovative hybrid natural–artificial sports pitch construction system
Authors: Lulli F , Volterrani M , Magni S , Armeni R 
Published: February 2011

Third-generation artificial-turf pitches are often criticized because of their high abrasiveness when athletes fall on the surface, the high temperatures recorded in summer periods, and their unpleasant rubber odour. On the other hand, natural-turf pitches are not able to withstand the high play volumes currently associated with modern high-profile and community sports pitches. Hybrid systems with a varying presence of artificial fibres and reinforcements have long been tested and installed, without providing a definitive answer to the above-mentioned problems of natural turf. The aim of this study was to evaluate the playing characteristics and the wear resistance of a newly patented hybrid natural-artificial sports pitch construction system after rugby and football play for 2 months and 5 months. This hybrid system consists of a modified third-generation artificial grass with organic infill, on which natural grass was allowed to grow. A 11300 m2 experimental pitch was constructed in Pisa (Italy) in the summer of 2007 and tested during 2007–2008 following football and rugby union play for an average of 8–9 h/week. The hybrid pitch showed a total absence of rubber odour, summer temperatures similar to those of natural-turf pitches, wear resistance superior to that of natural-turf pitches, abrasiveness similar to that of natural-turf pitches, and good infill particle size stability. Most playing-quality parameters fell within both the Fédération Internationale de Football Association (FIFA) Recommended 2-Star Standard requirements for artificial turf and generally accepted playing-quality parameters for natural turf. Since then more pitches as described herein have been constructed and witnessed international match play, while FIFA has classified the system as a reinforced natural-grass pitch.
C/EBPα and C/EBPα oncoproteins regulate nfkb1 and displace histone deacetylases from NF-κB p50 homodimers to induce NF-κB target genes
Authors: Paz-Priel Ido , Houng Simone , Dooher Julia , Friedman Alan D. 
Published: February 2011

AbstractMutated CEBPA defines a subgroup of acute myeloid leukemia (AML). We have previously shown that C/EBPα or its AML mutants synergize with NF-κB p50 to activate antiapoptotic genes, including BCL2 and FLIP. Furthermore, p50 binds and activates the CEBPA gene in myeloid cells. We now report that C/EBPα or C/EBPα leucine zipper AML mutants bind in vivo to the nfkb1 (p50) promoter and induce its expression even in the presence of cycloheximide. Induction of p50 by C/EBPα depends on 2 conserved κB sites in the nfkb1 promoter. C/EBPα did not induce p65 expression. Thus, C/EBPα and p50 reciprocally regulate each other's expression, establishing a positive feedback relationship. Although p50 homodimers inhibit transcription, C/EBPα and p50 synergistically activate antiapoptotic genes. ChIP analysis showed that C/EBPα diminishes the occupation of histone deacetylase 1 (HDAC1) or HDAC3 on the endogenous FLIP promoter but not in mice lacking p50. Coimmunoprecipitation confirmed that C/EBPα, its AML variants, or C/EBPβ disrupt interaction between p50 and HDACs dependent on the C/EBP basic region. These findings suggest that C/EBPs displace HDACs from p50 homodimers bound to antiapoptotic genes, contributing to NF-κB dysregulation in leukemia, and that the C/EBPα:p50 complex is a potential therapeutic target.
Hepcidin and iron regulation, 10 years later
Authors: Ganz Tomas 
Published: February 2011

AbstractUnder evolutionary pressure to counter the toxicity of iron and to maintain adequate iron supply for hemoglobin synthesis and essential metabolic functions, humans and other vertebrates have effective mechanisms to conserve iron and to regulate its concentration, storage, and distribution in tissues. The iron-regulatory hormone hepcidin, first described 10 years ago, and its receptor and iron channel ferroportin control the dietary absorption, storage, and tissue distribution of iron. Hepcidin causes ferroportin internalization and degradation, thereby decreasing iron transfer into blood plasma from the duodenum, from macrophages involved in recycling senescent erythrocytes, and from iron-storing hepatocytes. Hepcidin is feedback regulated by iron concentrations in plasma and the liver and by erythropoietic demand for iron. Genetic malfunctions affecting the hepcidin-ferroportin axis are a main cause of iron overload disorders but can also cause iron-restricted anemias. Modulation of hepcidin and ferroportin expression during infection and inflammation couples iron metabolism to host defense and decreases iron availability to invading pathogens. This response also restricts the iron supply to erythropoietic precursors and may cause or contribute to the anemia associated with infections and inflammatory disorders.
Thrombotic Microangiopathic Hemolytic Anemia With Reduction of ADAMTS13 Activity
Authors: Muscal Eyal , Edwards Rachel M. , Kearney Debra L. , Hicks John M. , Myones Barry L. , Teruya Jun 
Published: February 2011

Abstract
Severe manifestations of systemic lupus erythematosus (SLE), antiphospholipid syndrome (APS), and thrombotic thrombocytopenic purpura (TTP) are characterized by multiorgan thrombotic microangiopathy. We describe reduction of ADAMTS13 activity and the development of systemic autoimmunity in all 8 children initially diagnosed with acquired noncongenital TTP during an 8.5-year period. Median age at diagnosis was 12.0 years (range, 2.6–17.3 years). ADAMTS13 activity was absent (&lt;5%) in 6 patients; 3 patients had a detected inhibitor. SLE was diagnosed concurrently in 3 patients, and 4 patients were diagnosed within 5 years. Six of the children diagnosed with SLE had absent ADAMTS13 activity at diagnosis. In 6 patients with SLE, immune-mediated nephritis developed by 46 months. All surviving patients with SLE developed antiphospholipid antibodies, including some with a lupus anticoagulant. Patients with SLE did not have TTP recurrences once daily immunosuppressive regimens were started. An evaluation for SLE/APS is warranted in children and adolescents with reduced ADAMTS13 activity and thrombotic microangiopathy.