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Search Results: 1 - 10 of 167784 matches for " Devin E. McQuaid "
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aCGHViewer: A Generic Visualization Tool For aCGH data
Ganesh Shankar,Michael R. Rossi,Devin E. McQuaid,Jeffrey M. Conroy
Cancer Informatics , 2006,
Abstract: Array-Comparative Genomic Hybridization (aCGH) is a powerful high throughput technology for detecting chromosomal copy number aberrations (CNAs) in cancer, aiming at identifying related critical genes from the affected genomic regions. However, advancing from a dataset with thousands of tabular lines to a few candidate genes can be an onerous and time-consuming process. To expedite the aCGH data analysis process, we have developed a user-friendly aCGH data viewer (aCGHViewer) as a conduit between the aCGH data tables and a genome browser. The data from a given aCGH analysis are displayed in a genomic view comprised of individual chromosome panels which can be rapidly scanned for interesting features. A chromosome panel containing a feature of interest can be selected to launch a detail window for that single chromosome. Selecting a data point of interest in the detail window launches a query to the UCSC or NCBI genome browser to allow the user to explore the gene content in the chromosomal region. Additionally, aCGHViewer can display aCGH and expression array data concurrently to visually correlate the two. aCGHViewer is a stand alone Java visualization application that should be used in conjunction with separate statistical programs. It operates on all major computer platforms and is freely available at http://falcon.roswellpark.org/aCGHview/.
Dark Matter Stabilization Symmetries and Long-Lived Particles at the Large Hadron Collider
Devin G. E. Walker
Physics , 2009,
Abstract: Many popular models of new physics beyond the Standard Model use a parity to stabilize weakly interacting, dark matter candidates. We examine the potential for the CERN Large Hadron Collider to distinguish models with parity stabilized dark matter from models in which the dark matter is stabilized by other symmetries. In this letter, we focus on signatures involving long-lived particles and large amounts of missing transverse energy. To illustrate these signatures, we consider three models from the literature which are representative of a more general class of models with non-traditional stabilization symmetries. The most optimistic scenario can observe the proposed signature with a minimum of 10 inverse fb of integrated luminosity at design center of mass energy. It will probably take considerable longer to validate the stabilizing symmetry is not a simple parity. In all, we emphasize that the underlying symmetry that stabilizes weakly interacting dark matter has tremendous implications for the LHC and our understanding of the nature of dark matter.
Dark Baryogenesis
Devin G. E. Walker
Physics , 2012,
Abstract: We first suggested a scenario in which a generic, dark chiral gauge group undergoes a first order phase transition in order to generate the observed baryon asymmetry in the universe, provide a viable dark matter candidate and explain the observed baryon-to-dark matter ratio of relic abundances [arXiv:1003.0899]. We now provide a model in which a copy of the electroweak gauge group is added to the Standard Model. We spontaneously break this new gauge group to the diagonal Z_2 center which is used to stabilize a dark matter candidate. In addition to the dark matter candidate, anomaly free messenger fermions are included which transform non-trivially under all the gauge groups. In analogy to electroweak baryogenesis, the model generates an excess of messenger "baryons". These "baryons" subsequently decay to the Standard Model and dark matter to generate an excess of Standard Model baryons. The baryon-to-dark matter number density ratio is ultimately due to the requirement of gauge anomaly freedom. Dark sphalerons generate operators which violate B - L but preserves B + L. Thus, the asymmetry is not washed out by the Standard Model. The model radiatively generates a dark matter mass of order of the electroweak vacuum expectation value suppressed by a loop factor therefore setting the dark matter-to-baryon relic abundance. We outline some distinctive experimental signatures and ensure these models are consistent with existing constraints. As first discussed in [arXiv:0907.3142], these dark matter scenarios feature long-lived particles which can be observed at colliders. We finally show how approximate global symmetries in the higgs sector stabilize both the dark and electroweak scales thereby mitigating the hierarchy problem. Light dark higgses are needed to ensure the correct relic abundance. Thus, by construction the SM and dark higgses generate masses at two- and three-loops, respectively.
Deficient Sumoylation of Yeast 2-Micron Plasmid Proteins Rep1 and Rep2 Associated with Their Loss from the Plasmid-Partitioning Locus and Impaired Plasmid Inheritance
Jordan B. Pinder, Mary E. McQuaid, Melanie J. Dobson
PLOS ONE , 2013, DOI: 10.1371/journal.pone.0060384
Abstract: The 2-micron plasmid of the budding yeast Saccharomyces cerevisiae encodes copy-number amplification and partitioning systems that enable the plasmid to persist despite conferring no advantage to its host. Plasmid partitioning requires interaction of the plasmid Rep1 and Rep2 proteins with each other and with the plasmid-partitioning locus STB. Here we demonstrate that Rep1 stability is reduced in the absence of Rep2, and that both Rep proteins are sumoylated. Lysine-to-arginine substitutions in Rep1 and Rep2 that inhibited their sumoylation perturbed plasmid inheritance without affecting Rep protein stability or two-hybrid interaction between Rep1 and Rep2. One-hybrid and chromatin immunoprecipitation assays revealed that Rep1 was required for efficient retention of Rep2 at STB and that sumoylation-deficient mutants of Rep1 and Rep2 were impaired for association with STB. The normal co-localization of both Rep proteins with the punctate nuclear plasmid foci was also lost when Rep1 was sumoylation-deficient. The correlation of Rep protein sumoylation status with plasmid-partitioning locus association suggests a theme common to eukaryotic chromosome segregation proteins, sumoylated forms of which are found enriched at centromeres, and between the yeast 2-micron plasmid and viral episomes that depend on sumoylation of their maintenance proteins for persistence in their hosts.
The cost-effectiveness of early noninvasive ventilation for ALS patients
Kirsten L Gruis, Michael E Chernew, Devin L Brown
BMC Health Services Research , 2005, DOI: 10.1186/1472-6963-5-58
Abstract: Using a Markov decision analytic model we calculated the benefit in health-state utility that NIPPV initiated at ALS diagnosis must achieve to be cost-effective. The primary outcome was the percent utility gained through NIPPV in relation to two common willingness-to-pay thresholds: $50,000 and $100,000 per quality-adjusted life year (QALY).Our results indicate that if NIPPV begun at the time of diagnosis improves ALS patient HRQL as little as 13.5%, it would be a cost-effective treatment. Tolerance of NIPPV (assuming a 20% improvement in HRQL) would only need to exceed 18% in our model for treatment to remain cost-effective using a conservative willingness-to-pay threshold of $50,000 per QALY.If early use of NIPPV in ALS patients is shown to improve HRQL in future studies, it is likely to be a cost-effective treatment. Clinical trials of NIPPV begun at the time of ALS diagnosis are therefore warranted from a cost-effectiveness standpoint.Respiratory failure is the most common cause of ALS patient death[1]. Prior to respiratory failure, respiratory muscle weakness can be measured by standard pulmonary function tests including forced vital capacity (FVC)[2]. Treatment of ALS patients with noninvasive positive pressure ventilation (NIPPV) when FVC is less than 50% appears to improve ALS patient survival[3,4] and quality of life [5-7]. Improved survival of ALS patients with NIPPV may be explained by a slower rate of pulmonary function decline[4,5].NIPPV initiated early in the ALS disease course may off-load respiratory muscle work and thereby attenuate the progressive decrease in pulmonary compliance seen in ALS[8]. This treatment may also improve quality of life as ALS patients early in their course may experience non-specific symptoms of fatigue and lethargy, related to subtle respiratory muscle weakness, which goes unrecognized or is attributed to impaired mobility[2]. Whether initiation of NIPPV at diagnosis, when FVC is typically reduced but greater than 50%, slow
Trasplante hepático de donador vivo adulto-adulto
Vilatobá, Mario;Eckhoff, Devin E.;Contreras, Juan L.;
Revista de investigación clínica , 2005,
Abstract: end-stage liver disease is being treated by liver transplantation since more than 20 years. despite social and legislative efforts, the number of cadaveric organs suitable for liver transplantation has not grown to mach the surplus of patients with end-stage liver disease. whit the growing discrepancy between donors and recipients, the median waiting time for liver transplantation has increases dramatically. as a result, the number of patients who die while waiting is increasing. to attempt to meet the growing needs of recipients, surgeons are developing innovative techniques to increase the number of donated livers. these include: split liver transplantation and transplantation of a part of the liver from living donors. this review will focus on adult-to-adult transplantation of the right lobe from a living donor.
Selección del receptor para trasplante hepático
Vilatobá, Mario;Eckhoff, Devin E.;Contreras, Juan Luis;
Revista de investigación clínica , 2005,
Abstract: in the last few years, there have been developments in many aspects of liver transplantation. improvements in surgical techniques and immunosuppression markedly increased the success rates of liver transplantation. this success has lead to increasing numbers of recipients. however, the availability of cadaveric organs for transplantation has not been changed in the last 10 years, resulting in a growing discrepancy between donors and recipients. thus, it is necessary to properly select the best candidates for a successful liver transplant. this article will review the indications and contraindications for liver transplantation in the model for end stage liver disease (meld) score era.
Poetic Transcription to Explore the Concept of Caring
Judy E. Davidson,Lori Burnell,Liz Devin,Renada Rochon
International Journal of Caring Sciences , 2012,
Abstract: Aims: To explore Sister Simone Roach’s caring model using poetry to illustrate real life nursingexemplars. These poems also served as a means of recognizing and teaching nurses about caring practicestypical to their workplace.Background: The organization had recently adopted Sr. Simone Roach’s caring model. This project wasdone in an attempt to translate the caring model into poems using exemplars of nurses within theorganization.Methodology: Poetic transcription, a form of qualitative research, engages people in reflective learningand serves as a 'way of knowing’. After IRB approval and consent, poems were created from exemplarsabout nurse of the year candidates. Member-checking was performed to review the poem with participantsand revise until accepted by the nurse. The poems were sent to Sr. Simone Roach who provided writtenconfirmation for the method used to transform her theory into a format understood by the practicing nurse.Poems were coupled with a professional photograph to add a visual dimension to the project.Results: Eighty-five nurse-of-the-year candidates were approached to participate in the study over thecourse of 3 years during 2009-2011. Two nurses declined consent. Poems were displayed alongside aprofessional picture of the candidate. The poems were shared during a celebratory luncheon, posted to thewebsite, described in a newsletter, shared as reflections, and used for training in orientation.Conclusions: This novel approach was a well-received methodology for translating the caring model intopractice. The research was a successful means of recognition, education, and reflection.
Clade Age and Diversification Rate Variation Explain Disparity in Species Richness among Water Scavenger Beetle (Hydrophilidae) Lineages
Devin D. Bloom, Martin Fiká?ek, Andrew E. Z. Short
PLOS ONE , 2014, DOI: 10.1371/journal.pone.0098430
Abstract: Explaining the disparity of species richness across the tree of life is one of the great challenges in evolutionary biology. Some lineages are exceptionally species rich, while others are relatively species poor. One explanation for heterogeneity among clade richness is that older clades are more species rich because they have had more time to accrue diversity than younger clades. Alternatively, disparity in species richness may be due to among-lineage diversification rate variation. Here we investigate diversification in water scavenger beetles (Hydrophilidae), which vary in species richness among major lineages by as much as 20 fold. Using a time-calibrated phylogeny and comparative methods, we test for a relationship between clade age and species richness and for shifts in diversification rate in hydrophilids. We detected a single diversification rate increase in Megasternini, a relatively young and species rich clade whose diversity might be explained by the stunning diversity of ecological niches occupied by this clade. We find that Amphiopini, an old clade, is significantly more species poor than expected, possibly due to its restricted geographic range. The remaining lineages show a correlation between species richness and clade age, suggesting that both clade age and variation in diversification rates explain the disparity in species richness in hydrophilids. We find little evidence that transitions between aquatic, semiaquatic, and terrestrial habitats are linked to shifts in diversification rates.
Top Quark Pairs at High Invariant Mass - A Model-Independent Discriminator of New Physics at the LHC
Vernon Barger,Tao Han,Devin G. E. Walker
Physics , 2006, DOI: 10.1103/PhysRevLett.100.031801
Abstract: We study top quark pair production to probe new physics at the LHC. We propose reconstruction methods for $t\bar{t}$ semileptonic events and use them to reconstruct the $t\bar{t}$ invariant mass. The angular distribution of top quarks in their c.m. frame can determine the spin and production subprocess for each new physics resonance. Forward-backward asymmetry and CP-odd variables can be constructed to further delineate the nature of new physics. We parametrize the new resonances with a few generic parameters and show high invariant mass top pair production may provide an early indicator for new physics beyond the Standard Model.
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