Does involvement in a cohort study improve health and affect health inequalities? A natural experiment

Abstract Background Evidence suggests that the process of taking part in health research can improve participants\u2019 health, independent of any intended intervention. However, no research has yet explored whether these effects differ across socioeconomic groups. If the effect of mere participation in health research also has a social gradient this could increase health inequalities and bias research results. This study used the Born in Bradford family cohort (BIB) to explore whether simply taking part in BIB had improved participants\u2019 health and, if so, whether this effect was mediated by socioeconomic status. Methods Survey data on self-reported health behaviours were collected between 2007 and 2010 as part of BIB. These were augmented by clinical data on birth weight. Pregnant women on their second pregnancy, joining BIB for the first time formed the control group. Their health was compared to women on their second pregnancy who had both pregnancies within the study, who formed the exposed group. In order to limit the inherent bias in a non-randomised study, propensity score analysis was used, matching on age, ethnicity, education and date of questionnaire. The results were then compared according to mothers' education. Results Of six outcomes tested, only alcohol consumption showed a statistically significant reduction with exposure to BIB (OR: 0.35, 95% CIs 0.13, 0.92). Although effect estimates were larger for women with higher education compared to lower education, these effects were not statistically significant. Conclusions Despite one significant finding, these results overall are insufficient to conclude that simply taking part in BIB affected participants\u2019 health. We recommend that socioeconomic status is considered in future studies testing effects of research participation, and that randomised studies with larger sample sizes are conducted

What happens if you single out? An experiment

We present an experiment investigating the effects of singling out an individual on trust and trustworthiness. We find that (a) trustworthiness falls if there is a singled out subject; (b) non-singled out subjects discriminate against the singled out subject when they are not responsible of the distinct status of this person; (c) under a negative frame, the singled out subject returns significantly less; (d) under a positive frame, the singled out subject behaves bimodally, either selecting very low or very high return rates. Overall, singling out induces a negligible effect on trust but is potentially disruptive for trustworthiness

Inter-observer variability in contouring the penile bulb on CT images for prostate cancer treatment planning

Several investigations have recently suggested the existence of a correlation between the dose received by the penile bulb (PB) and the risk of erectile dysfunction (ED) after radical radiotherapy for clinically localized prostate carcinoma

Computational investigation of diesel nozzle internal flow during the complete injection event

[EN] Currently, diesel engines are calibrated using more and more complex multiple injection strategies. Under these conditions, the characteristics of the flow exiting the fuel injector are strongly affected by the transient interaction between the needle, the sac volume and the orifices, which are not yet clear. In the current paper, a methodology combining a 1D injector model and 3D-CFD simulations is proposed. First, the characteristics of the nozzle flow have been experimentally assessed in transient conditions by means of injection rate and momentum flux measurements. Later, the 3D-CFD modeling approach has been validated at steady-state fixed lift conditions. Finally, a previously developed 1D injector model has been used to extract the needle lift profiles and transient pressure boundary conditions used for the full-transient 3D-CFD simulations, using adaptive mesh refinement (AMR) strategies to be able to simulate the complete injection rate starting from 1 mu m lift.This work was partly sponsored by "Ministerio de Economia y Competitividad'', of the Spanish Government, in the frame of the Project "Estudio de la interaccion chorro-pared en condiciones realistas de motor'', Reference TRA2015-67679-c2-1-R. The authors would like also to thank the computer resources, technical expertise and assistance provided by Universidad de Valencia in the use of the supercomputer "Tirant''. Mr. Jaramillo's Thesis is funded by "Conselleria d'Educacio, Cultura i Esports'' of Generalitat Valenciana in the frame of the program "Programa VALI + D para investigadores en formacion, Reference ACIF/2015/040.Salvador, FJ.; De La Morena, J.; Bracho Leon, G.; Jaramillo-Císcar, D. (2018). Computational investigation of diesel nozzle internal flow during the complete injection event. Journal of the Brazilian Society of Mechanical Sciences and Engineering. 40(3):153-167. https://doi.org/10.1007/s40430-018-1074-zS153167403Hall CAS, Lambert JG, Balogh SB (2014) EROI of different fuels and the implications for society. Energy Policy 64:141–152. https://doi.org/10.1016/j.enpol.2013.05.049Lujan JM, Tormos B, Salvador FJ, Gargar K (2009) Comparative analysis of a DI diesel engine fuelled with biodiesel blends during the European MVEG-A cycle: preliminary study (I). Biomass Bioenergy 33:941–947. https://doi.org/10.1016/j.biombioe.2009.02.004Pickett LM, Siebers DL (2004) Soot in diesel fuel jets: effects of ambient temperature, ambient density, and injection pressure. Combust Flame 138:114–135. https://doi.org/10.1016/j.combustflame.2004.04.006Dec JE (1997) A Conceptual Model of DI Diesel Combustion Based on Laser-Sheet Imaging. SAE Tech. Pap. 970873Wang X, Huang Z, Zhang W et al (2011) Effects of ultra-high injection pressure and micro-hole nozzle on flame structure and soot formation of impinging diesel spray. Appl Energy 88:1620–1628. https://doi.org/10.1016/j.apenergy.2010.11.035Sayin C, Gumus M, Canakci M (2013) Influence of injector hole number on the performance and emissions of a di diesel engine fueled with biodiesel-diesel fuel blends. Appl Therm Eng 61:121–128. https://doi.org/10.1016/j.applthermaleng.2013.07.038Mohan B, Yang W, Chou SK (2013) Fuel injection strategies for performance improvement and emissions reduction in compression ignition engines—A review. Renew Sustain Energy Rev 28:664–676. https://doi.org/10.1016/j.rser.2013.08.051Payri R, Salvador FJ, Gimeno J, De la Morena J (2011) Influence of injector technology on injection and combustion development, Part 1: hydraulic characterization. Appl Energy 88:1068–1074. https://doi.org/10.1016/j.apenergy.2010.10.012Park SW, Kim JW, Lee CS (2006) Effect of injector type on fuel-air mixture formation of high-speed diesel sprays. Proc Inst Mech Eng D 220:647–659. https://doi.org/10.1243/09544070D20304Moon S, Komada K, Sato K et al (2015) Ultrafast X-ray study of multi-hole GDI injector sprays: effects of nozzle hole length and number on initial spray formation. Exp Therm Fluid Sci 68:68–81. https://doi.org/10.1016/j.expthermflusci.2015.03.027Powell CF, Kastengren AL, Liu Z, Fezzaa K (2010) The effects of diesel injector needle motion on spray structure. J Eng Gas Turbines Power 133:12802. https://doi.org/10.1115/1.4001073Huang W, Moon S, Ohsawa K (2016) Near-nozzle dynamics of diesel spray under varied needle lifts and its prediction using analytical model. Fuel 180:292–300. https://doi.org/10.1016/j.fuel.2016.04.042Sun Z-Y, Li G-X, Chen C et al (2015) Numerical investigation on effects of nozzle’s geometric parameters on the flow and the cavitation characteristics within injector’s nozzle for a high-pressure common-rail DI diesel engine. Energy Convers Manag 89:843–861. https://doi.org/10.1016/j.enconman.2014.10.047Devassy BM, Habchi C, Daniel E (2015) Atomization modelling of liquid jets using a two-surface density approach. At Sprays 25:47–80Moon S, Gao Y, Park S et al (2015) Effect of the number and position of nozzle holes on in- and near-nozzle dynamic characteristics of diesel injection. Fuel 150:112–122. https://doi.org/10.1016/j.fuel.2015.01.097Payri R, Salvador FJ, Carreres M, De la Morena J (2016) Fuel temperature influence on the performance of a last generation common-rail diesel ballistic injector. Part II: 1D model development, validation and analysis. Energy Convers Manag 114:376–391. https://doi.org/10.1016/j.enconman.2016.02.043Plamondon E, Seers P (2014) Development of a simplified dynamic model for a piezoelectric injector using multiple injection strategies with biodiesel/diesel-fuel blends. Appl Energy 131:411–424. https://doi.org/10.1016/j.apenergy.2014.06.039Postrioti L, Malaguti S, Bosi M et al (2014) Experimental and numerical characterization of a direct solenoid actuation injector for diesel engine applications. Fuel 118:316–328. https://doi.org/10.1016/j.fuel.2013.11.001Desantes JM, Salvador FJ, Lopez JJ, De la Morena J (2011) Study of mass and momentum transfer in diesel sprays based on X-ray mass distribution measurements and on a theoretical derivation. Exp Fluids 50:233–246. https://doi.org/10.1007/s00348-010-0919-8De la Morena J, Neroorkar K, Plazas AH et al (2013) Numerical analysis of the influence of diesel nozzle design on internal flow characteristics for 2-valve diesel engine application. At Sprays 23:97–118. https://doi.org/10.1615/AtomizSpr.2013006361Duke DJ, Schmidt DP, Neroorkar K et al (2013) High-resolution large eddy simulations of cavitating gasoline-ethanol blends. Int J Engine Res 14:578–589. https://doi.org/10.1177/1468087413501824Mitroglou N, McLorn M, Gavaises M et al (2014) Instantaneous and ensemble average cavitation structures in diesel micro-channel flow orifices. Fuel 116:736–742. https://doi.org/10.1016/j.fuel.2013.08.060Wang X, Li K, Su W (2012) Experimental and numerical investigations on internal flow characteristics of diesel nozzle under real fuel injection conditions. Exp Therm Fluid Sci 42:204–211. https://doi.org/10.1016/j.expthermflusci.2012.04.022Sou A, Pratama RH (2016) Effects of asymmetric inflow on cavitation in fuel injector and discharged liquid jet. At Sprays 26:939–959. https://doi.org/10.1615/AtomizSpr.2015013501Xue Q, Battistoni M, Powell CF et al (2015) An Eulerian CFD model and X-ray radiography for coupled nozzle flow and spray in internal combustion engines. Int J Multiph Flow 70:77–88. https://doi.org/10.1016/j.ijmultiphaseflow.2014.11.012Castilla R, Gamez-Montero PJ, Ertrk N et al (2010) Numerical simulation of turbulent flow in the suction chamber of a gearpump using deforming mesh and mesh replacement. Int J Mech Sci 52:1334–1342. https://doi.org/10.1016/j.ijmecsci.2010.06.009Parlak Z, Engin T (2012) Time-dependent CFD and quasi-static analysis of magnetorheological fluid dampers with experimental validation. Int J Mech Sci 64:22–31. https://doi.org/10.1016/j.ijmecsci.2012.08.006Chiatti G, Chiavola O, Palmieri F (2009) Spray modeling for diesel engine performance analysis. SAE Tech Pap 2009-01-0835. https://doi.org/10.4271/2009-01-0835Marcer R, Audiffren C, Viel A, et al (2010) Coupling 1D system AMESim and 3D CFD EOLE models for diesel injection simulation Renault. In: ILASS—Eur. 2010, 23rd Annu. Conf. Liq. At. Spray Syst., pp 1–10Desantes JM, Salvador FJ, Carreres M, Martínez-López J (2014) Large-eddy simulation analysis of the influence of the needle lift on the cavitation in diesel injector nozzles. Proc Inst Mech Eng D 229:407–423. https://doi.org/10.1177/0954407014542627Battistoni M, Xue Q, Som S (2016) Large-eddy simulation (LES) of spray transients: start and end of injection phenomena. Oil Gas Sci Technol 71:24. https://doi.org/10.2516/ogst/2015024CONVERGE is a trade mark of convergent science. https://convergecfd.comMacian V, Bermúdez V, Payri R, Gimeno J (2003) New technique for determination of internal geometry of a diesel nozzle with the use of silicone methodology. Exp Tech 27:39–43. https://doi.org/10.1111/j.1747-1567.2003.tb00107.xDabiri S, Sirignano WA, Joseph DD (2007) Cavitation in an orifice flow. Phys Fluids 19:72112. https://doi.org/10.1063/1.2750655Mohan B, Yang W, Chou SK (2014) Cavitation in injector nozzle holes—a parametric study. Eng Appl Comput Fluid Mech 8:70–81Salvador FJ, Hoyas S, Novella R, Martinez-Lopez J (2011) Numerical simulation and extended validation of two-phase compressible flow in diesel injector nozzles. Proc Inst Mech Eng D 225:545–563. https://doi.org/10.1177/09544070JAUTO1569Som S, Longman DE, Ramirez AI, Aggarwal S (2012) Influence of nozzle orifice geometry and fuel properties on flow and cavitation characteristics of a diesel injector. In: Fuel Inject. Automot. Eng., pp 112–126Desantes JM, Salvador FJ, Carreres M, Jaramillo D (2015) Experimental characterization of the thermodynamic properties of diesel fuels over a wide range of pressures and temperatures. SAE Int J Fuels Lubr 8:2015-01-0951. https://doi.org/10.4271/2015-01-0951Bosch W (1966) The fuel rate indicator: a new measuring instrument for display of the characteristics of individual injection. SAE Pap. 660749Payri R, Salvador FJ, Gimeno J, Bracho G (2008) A new methodology for correcting the signal cumulative phenomenon on injection rate measurements. Exp Tech 32:46–49. https://doi.org/10.1111/j.1747-1567.2007.00188.xPayri F, Payri R, Salvador FJ, Martínez-López J (2011) A contribution to the understanding of cavitation effects in diesel injector nozzles through a combined experimental and computational investigation. Comput Fluids 58:88–101. https://doi.org/10.1016/j.compfluid.2012.01.005Lichtarowicz AK, Duggins RK, Markland E (1965) Discharge coefficients for incompressible non-cavitating flow through long orifices. J Mech Eng Sci 7:210–219. https://doi.org/10.1243/JMES_JOUR_1965_007_029_02Lopez JJ, Salvador FJ, De la Garza OA, Arrègle J (2012) Characterization of the pressure losses in a common rail diesel injector. Proc Inst Mech Eng D 226:1697–1706. https://doi.org/10.1177/0954407012447020Salvador FJ, Carreres M, Jaramillo D, Martínez-López J (2015) Comparison of microsac and VCO diesel injector nozzles in terms of internal nozzle flow characteristics. Energy Convers Manag 103:284–299. https://doi.org/10.1016/j.enconman.2015.05.062LMS (2010) Imagine.Lab AMESim v.10. User’s manualPayri R, Salvador FJ, Martí-Aldaraví P, Martínez-López J (2012) Using one-dimensional modeling to analyze the influence of the use of biodiesels on the dynamic behavior of solenoid-operated injectors in common rail systems: detailed injection system model. Energy Convers Manag 54:90–99. https://doi.org/10.1016/j.enconman.2011.10.00

Global Patterns of City Size Distributions and Their Fundamental Drivers

Urban areas and their voracious appetites are increasingly dominating the flows of energy and materials around the globe. Understanding the size distribution and dynamics of urban areas is vital if we are to manage their growth and mitigate their negative impacts on global ecosystems. For over 50 years, city size distributions have been assumed to universally follow a power function, and many theories have been put forth to explain what has become known as Zipf's law (the instance where the exponent of the power function equals unity). Most previous studies, however, only include the largest cities that comprise the tail of the distribution. Here we show that national, regional and continental city size distributions, whether based on census data or inferred from cluster areas of remotely-sensed nighttime lights, are in fact lognormally distributed through the majority of cities and only approach power functions for the largest cities in the distribution tails. To explore generating processes, we use a simple model incorporating only two basic human dynamics, migration and reproduction, that nonetheless generates distributions very similar to those found empirically. Our results suggest that macroscopic patterns of human settlements may be far more constrained by fundamental ecological principles than more fine-scale socioeconomic factors

Flexible mapping of homology onto structure with Homolmapper

<p>Abstract</p> <p>Background</p> <p>Over the past decade, a number of tools have emerged for the examination of homology relationships among protein sequences in a structural context. Most recent software implementations for such analysis are tied to specific molecular viewing programs, which can be problematic for collaborations involving multiple viewing environments. Incorporation into larger packages also adds complications for users interested in adding their own scoring schemes or in analyzing proteins incorporating unusual amino acid residues such as selenocysteine.</p> <p>Results</p> <p>We describe homolmapper, a command-line application for mapping information from a multiple protein sequence alignment onto a protein structure for analysis in the viewing software of the user's choice. Homolmapper is small (under 250 K for the application itself) and is written in Python to ensure portability. It is released for non-commercial use under a modified University of California BSD license. Homolmapper permits facile import of additional scoring schemes and can incorporate arbitrary additional amino acids to allow handling of residues such as selenocysteine or pyrrolysine. Homolmapper also provides tools for defining and analyzing subfamilies relative to a larger alignment, for mutual information analysis, and for rapidly visualizing the locations of mutations and multi-residue motifs.</p> <p>Conclusion</p> <p>Homolmapper is a useful tool for analysis of homology relationships among proteins in a structural context. There is also extensive, example-driven documentation available. More information about homolmapper is available at <url>http://www.mcb.ucdavis.edu/faculty-labs/lagarias/homolmapper_home/homolmapper%20web%20page.htm</url>.</p

Genotyping and antibiotic resistance of thermophilic Campylobacter isolated from chicken and pig meat in Vietnam

Background Campylobacter species are recognized as the most common cause of foodborne bacterial gastroenteritis in humans. In this study nine Campylobacter strains isolated from chicken meat and pork in Hanoi, Vietnam, were characterized using molecular methods and tested for antibiotic resistance. Results The nine isolates (eight C. jejuni and one C. coli) were identified by multiplex PCR, and tested for the presence or absence of 29 gene loci associated with virulence, lipooligosaccharide (LOS) biosynthesis and further functions. flaA typing, multilocus sequence typing and microarray assay investigation showed a high degree of genetic diversity among these isolates. In all isolates motility genes (flaA, flaB, flhA, fliM), colonization associated genes (cadF, docB), toxin production genes (cdtA, cdtB, secD, secF), and the LOS biosynthesis gene pglB were detected. Eight gene loci (fliY, virB11, Cje1278, Cj1434c, Cj1138, Cj1438c, Cj1440c, Cj1136) could not be detected by PCR. A differing presence of the gene loci ciaB (22.2 %), Cje1280 (77.8 %), docC (66.7 %), and cgtB (55.6 %) was found. iamA, cdtC, and the type 6 secretion system were present in all C. jejuni isolates but not in C. coli. flaA typing resulted in five different genotypes within C. jejuni, MLST classified the isolates into seven sequence types (ST-5155, ST-6736, ST-2837, ST-4395, ST-5799, ST-4099 and ST-860). The microarray assay analysis showed a high genetic diversity within Vietnamese Campylobacter isolates which resulted in eight different types for C. jejuni. Antibiotic susceptibility profiles showed that all isolates were sensitive to gentamicin and most isolates (88.8 %) were sensitive to chloramphenicol, erythromycin and streptomycin. Resistance rates to nalidixic acid, tetracycline and ciprofloxacin were 88.9, 77.8 and 66.7 %, respectively. Conclusions To the best of our knowledge, this study is the first report that shows high genetic diversity and remarkable antibiotic resistance of Campylobacter strains isolated from meat in Vietnam which can be considered of high public health significance. These preliminary data show that large scale screenings are justified to assess the relevance of Campylobacter infections on human health in Vietnam

Depolarization-Evoked Secretion Requires Two Vicinal Transmembrane Cysteines of Syntaxin 1A

BACKGROUND: The interactions of the voltage-gated Ca(2+) channel (VGCC) with syntaxin 1A (Sx 1A), Synaptosome-associated protein of 25 kD (SNAP-25), and synaptotagmin, couple electrical excitation to evoked secretion. Two vicinal Cys residues, Cys 271 and Cys 272 in the Sx 1A transmembrane domain, are highly conserved and participate in modulating channel kinetics. Each of the Sx1A Cys mutants, differently modify the kinetics of Cav1.2, and neuronal Cav2.2 calcium channel. METHODOLOGY/PRINCIPLE FINDINGS: We examined the effects of various Sx1A Cys mutants and the syntaxin isoforms 2, 3, and 4 each of which lack vicinal Cys residues, on evoked secretion, monitoring capacitance transients in a functional release assay. Membrane capacitance in Xenopus oocytes co-expressing Cav1.2, Sx1A, SNAP-25 and synaptotagmin, which is Bot C- and Bot A-sensitive, was elicited by a double 500 ms depolarizing pulse to 0 mV. The evoked-release was obliterated when a single Cys Sx1A mutant or either one of the Sx isoforms were substituted for Sx 1A, demonstrating the essential role of vicinal Cys residues in the depolarization mediated process. Protein expression and confocal imaging established the level of the mutated proteins in the cell and their targeting to the plasma membrane. CONCLUSIONS/SIGNIFICANCE: We propose a model whereby the two adjacent transmembranal Cys residues of Sx 1A, lash two calcium channels. Consistent with the necessity of a minimal fusion complex termed the excitosome, each Sx1A is in a complex with SNAP-25, Syt1, and the Ca(2+) channel. A Hill coefficient >2 imply that at least three excitosome complexes are required for generating a secreting hetero-oligomer protein complex. This working model suggests that a fusion pore that opens during membrane depolarization could be lined by alternating transmembrane segments of Sx1A and VGCC. The functional coupling of distinct amino acids of Sx 1A with VGCC appears to be essential for depolarization-evoked secretion