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Infectious disease modelling

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https://www.readbyqxmd.com/read/28445822/identification-of-the-inactivating-factors-and-mechanisms-exerted-on-ms2-coliphage-in-concentrated-synthetic-urine
#1
Wakana Oishi, Daisuke Sano, Loic Decrey, Syunsuke Kadoya, Tamar Kohn, Naoyuki Funamizu
Volume reduction (condensation) is a key for the practical usage of human urine as a fertilizer because it enables the saving of storage space and the reduction of transportation cost. However, concentrated urine may carry infectious disease risks resulting from human pathogens frequently present in excreta, though the survival of pathogens in concentrated urine is not well understood. In this study, the inactivation of MS2 coliphage, a surrogate for single-stranded RNA human enteric viruses, in concentrated synthetic urine was investigated...
April 23, 2017: Science of the Total Environment
https://www.readbyqxmd.com/read/28445322/validation-of-prognostic-scores-to-predict-short-term-mortality-in-patients-with-hbv-related-acute-on-chronic-liver-failure-the-clif-c-of-is-superior-to-meld-clif-sofa-and-clif-c-aclf
#2
Ning Li, Chong Huang, Kang-Kang Yu, Qing Lu, Guang-Feng Shi, Jian-Ming Zheng
Acute-on-chronic liver failure (ACLF) in chronic hepatitis B (CHB) patients has a high short-term mortality. Identification of effective models to predict the short-term mortality may enable early intervention and improve patients' prognosis. We aim to assess the performance of the CLIF Consortium Organ Failure score (CLIF-C OFs), CLIF sequential organ failure assessment score (CLIF-SOFAs), CLIF Consortium ACLF score (CLIF-C ACLFs), ACLF grade, and model for end-stage liver disease score (MELDs) in predicting the short-term mortality in CHB patients with ACLF...
April 2017: Medicine (Baltimore)
https://www.readbyqxmd.com/read/28444127/hla-class-i-binding-prediction-via-convolutional-neural-networks
#3
Yeeleng S Vang, Xiaohui Xie
Motivation: Many biological processes are governed by protein-ligand interactions. One such example is the recognition of self and nonself cells by the immune system. This immune response process is regulated by the major histocompatibility complex (MHC) protein which is encoded by the human leukocyte antigen (HLA) complex. Understanding the binding potential between MHC and peptides can lead to the design of more potent, peptide-based vaccines and immunotherapies for infectious autoimmune diseases...
April 21, 2017: Bioinformatics
https://www.readbyqxmd.com/read/28440501/transfer-of-cd11c-lamina-propria-mononuclear-phagocytes-from-post-infectious-irritable-bowel-syndrome-causes-mucosal-barrier-dysfunction-and-visceral-hypersensitivity-in-recipient-mice
#4
Ya-Jun Ren, Lei Zhang, Tao Bai, Hong-Lu Yu, Ying Li, Wei Qian, Si Jin, Zhi-Fan Xiong, Huan Wang, Xiao-Hua Hou
The role of low-grade inflammation in the development of post‑infectious irritable bowel syndrome (PI‑IBS) has attracted increasing attention. Abnormal CD11c+ mononuclear phagocytes, such as dendritic cells (DCs), macrophages, and monocytes, are involved in the disruption of immune tolerance in organisms, which can lead to the development of chronic inflammatory diseases. The present study tested the hypothesis that CD11c+ lamina propria mononuclear phagocytes (CD11c+ LPMPs) contribute to increased mucosal permeability and visceral hypersensitivity in a PI‑IBS mouse model...
April 25, 2017: International Journal of Molecular Medicine
https://www.readbyqxmd.com/read/28438921/null-expectations-for-disease-dynamics-in-shrinking-habitat-dilution-or-amplification
#5
Christina L Faust, Andrew P Dobson, Nicole Gottdenker, Laura S P Bloomfield, Hamish I McCallum, Thomas R Gillespie, Maria Diuk-Wasser, Raina K Plowright
As biodiversity declines with anthropogenic land-use change, it is increasingly important to understand how changing biodiversity affects infectious disease risk. The dilution effect hypothesis, which points to decreases in biodiversity as critical to an increase in infection risk, has received considerable attention due to the allure of a win-win scenario for conservation and human well-being. Yet some empirical data suggest that the dilution effect is not a generalizable phenomenon. We explore the response of pathogen transmission dynamics to changes in biodiversity that are driven by habitat loss using an allometrically scaled multi-host model...
June 5, 2017: Philosophical Transactions of the Royal Society of London. Series B, Biological Sciences
https://www.readbyqxmd.com/read/28438917/disease-ecology-health-and-the-environment-a-framework-to-account-for-ecological-and-socio-economic-drivers-in-the-control-of-neglected-tropical-diseases
#6
A Garchitorena, S H Sokolow, B Roche, C N Ngonghala, M Jocque, A Lund, M Barry, E A Mordecai, G C Daily, J H Jones, J R Andrews, E Bendavid, S P Luby, A D LaBeaud, K Seetah, J F Guégan, M H Bonds, G A De Leo
Reducing the burden of neglected tropical diseases (NTDs) is one of the key strategic targets advanced by the Sustainable Development Goals. Despite the unprecedented effort deployed for NTD elimination in the past decade, their control, mainly through drug administration, remains particularly challenging: persistent poverty and repeated exposure to pathogens embedded in the environment limit the efficacy of strategies focused exclusively on human treatment or medical care. Here, we present a simple modelling framework to illustrate the relative role of ecological and socio-economic drivers of environmentally transmitted parasites and pathogens...
June 5, 2017: Philosophical Transactions of the Royal Society of London. Series B, Biological Sciences
https://www.readbyqxmd.com/read/28438915/conservation-development-and-the-management-of-infectious-disease-avian-influenza-in-china-2004-2012
#7
Tong Wu, Charles Perrings
There is growing evidence that wildlife conservation measures have mixed effects on the emergence and spread of zoonotic disease. Wildlife conservation has been found to have both positive (dilution) and negative (contagion) effects. In the case of avian influenza H5N1 in China, the focus has been on negative effects. Lakes and wetlands attracting migrating waterfowl have been argued to be disease hotspots. We consider the implications of waterfowl conservation for H5N1 infections in both poultry and humans between 2004 and 2012...
June 5, 2017: Philosophical Transactions of the Royal Society of London. Series B, Biological Sciences
https://www.readbyqxmd.com/read/28438910/lyme-disease-ecology-in-a-changing-world-consensus-uncertainty-and-critical-gaps-for-improving-control
#8
REVIEW
A Marm Kilpatrick, Andrew D M Dobson, Taal Levi, Daniel J Salkeld, Andrea Swei, Howard S Ginsberg, Anne Kjemtrup, Kerry A Padgett, Per M Jensen, Durland Fish, Nick H Ogden, Maria A Diuk-Wasser
Lyme disease is the most common tick-borne disease in temperate regions of North America, Europe and Asia, and the number of reported cases has increased in many regions as landscapes have been altered. Although there has been extensive work on the ecology and epidemiology of this disease in both Europe and North America, substantial uncertainty exists about fundamental aspects that determine spatial and temporal variation in both disease risk and human incidence, which hamper effective and efficient prevention and control...
June 5, 2017: Philosophical Transactions of the Royal Society of London. Series B, Biological Sciences
https://www.readbyqxmd.com/read/28438705/tigr4-strain-causes-more-severe-disease-than-wu2-strain-in-a-mouse-model-of-streptococcus-pneumoniae-meningitis-a-common-pathogenic-role-for-interferon-%C3%AE
#9
Belinda Yau, Lay Khoon Too, Helen J Ball, Nicholas H Hunt
Streptococcus pneumoniae (S. pneumoniae) meningitis causes debilitating neurological symptoms and acute fatalities in patients, and long-term neurological sequelae in some survivors. Current vaccines do not protect against all 94 known S. pneumoniae capsular serotypes, many of which are capable of causing pneumococcal meningitis (PM). We here compare the pathogenic outcomes of two clinically virulent isolates of S. pneumoniae, serotype 3 strain WU2 and serotype 4 strain TIGR4, in a murine model of PM. At an identical infectious dosage of 10(3) CFU administered via the intracerebroventricular route, significantly greater mortality, interleukin (IL)1β and IL6 production, and blood-brain barrier dysfunction occurred in TIGR4-induced PM compared to PM caused by WU2...
April 21, 2017: Microbes and Infection
https://www.readbyqxmd.com/read/28437843/a-bayesian-belief-network-model-assessing-the-risk-to-wastewater-workers-of-contracting-ebola-virus-disease-during-an-outbreak
#10
Joseph W Zabinski, Kelsey J Pieper, Jacqueline MacDonald Gibson
During an outbreak of Ebola virus disease (EVD), hospitals' connections to municipal wastewater systems may provide a path for patient waste bearing infectious viral particles to pass from the hospital into the wastewater treatment system, potentially posing risks to sewer and wastewater workers. To quantify these risks, we developed a Bayesian belief network model incorporating data on virus behavior and survival along with structural characteristics of hospitals and wastewater treatment systems. We applied the model to assess risks under several different scenarios of workers' exposure to wastewater for a wastewater system typical of a mid-sized U...
April 24, 2017: Risk Analysis: An Official Publication of the Society for Risk Analysis
https://www.readbyqxmd.com/read/28437093/a-pathogen-specific-cargo-delivery-platform-based-on-mesoporous-silica-nanoparticles
#11
Bastian Ruehle, Daniel L Clemens, Bai-Yu Lee, Marcus A Horwitz, Jeffrey I Zink
We present a synthetic approach to a highly pathogen-selective detection and delivery platform based on the in-teraction of an antibody nanovalve with a tetrasaccharide from the O-Antigen of the lipopolysaccharide of Francisella tularensis bacteria, a Tier 1 Select Agent of bioterrorism. Different design considerations are explored, and proof-of-concept for highly pathogen-specific cargo release from mesoporous silica nanoparticles is demonstrated by comparisons of the release of a signal transducer and model drug by LPS from Francisella tularensis vs...
April 24, 2017: Journal of the American Chemical Society
https://www.readbyqxmd.com/read/28437091/speeding-up-early-drug-discovery-in-antiviral-research-a-fragment-based-in-silico-approach-for-the-design-of-virtual-anti-hepatitis-c-leads
#12
Alejandro Speck-Planche, M Natalia Dias Soeiro Cordeiro
Hepatitis C constitutes an unresolved global health problem. This infectious disease is caused by the hepatotropic hepatitis C virus (HCV), and it can lead to the occurrence of life-threatening medical conditions such as cirrhosis and liver cancer. Nowadays, major clinical concerns have arisen due to the appearance of multidrug resistance (MDR), and the side effects especially associated with long-term treatments. In this work, we report the first multitasking model for quantitative structure-biological effect relationships (mtk-QSBER), focused on the simultaneous exploration of anti-HCV activity and in vitro safety profiles related to the absorption, distribution, metabolism, elimination, and toxicity (ADMET)...
April 24, 2017: ACS Combinatorial Science
https://www.readbyqxmd.com/read/28434763/computer-aided-discovery-of-two-novel-chalcone-like-compounds-active-and-selective-against-leishmania-infantum
#13
Marcelo N Gomes, Laura M Alcântara, Bruno J Neves, Cleber C Melo-Filho, Lucio H Freitas-Junior, Carolina B Moraes, Rui Ma, Scott G Franzblau, Eugene Muratov, Carolina Horta Andrade
Leishmaniasis are infectious diseases caused by parasites of genus Leishmania that affect affects 12 million people in 98 countries mainly in Africa, Asia, and Latin America. Effective treatments for this disease are urgently needed. In this study, we present a computer-aided approach to investigate a set of 32 recently synthesized chalcone and chalcone-like compounds to act as antileishmanial agents. As a result, nine most promising compounds and three potentially inactive compounds were experimentally evaluated against Leishmania infantum amastigotes and mammalian cells...
April 4, 2017: Bioorganic & Medicinal Chemistry Letters
https://www.readbyqxmd.com/read/28433336/the-association-of-postoperative-glycemic-control-and-lower-extremity-procedure-outcomes
#14
Todd R Vogel, Jamie B Smith, Robin L Kruse
OBJECTIVE: The effect of postoperative hyperglycemia in patients undergoing open and endovascular procedures on the lower extremities has not been fully characterized with regard to associated admission diagnoses, hospital complications, mortality, and 30-day readmission. This study evaluated the relationship of postoperative hyperglycemia on outcomes after lower extremity vascular procedures for peripheral artery disease. METHODS: Patients with peripheral artery disease admitted for elective lower extremity procedures between September 2008 and March 2014 were selected from the Cerner Health Facts (Cerner Corporation, Kansas City, Mo) database using International Classification of Diseases, Ninth Edition, Clinical Modification diagnosis and procedure codes...
April 19, 2017: Journal of Vascular Surgery
https://www.readbyqxmd.com/read/28431923/sources-of-racial-disparities-in-hiv-prevalence-in-men-who-have-sex-with-men-in-atlanta-ga-usa-a-modelling-study
#15
Steven M Goodreau, Eli S Rosenberg, Samuel M Jenness, Nicole Luisi, Sarah E Stansfield, Gregorio A Millett, Patrick S Sullivan
BACKGROUND: In the USA, men who have sex men (MSM) are at high risk for HIV, and black MSM have a substantially higher prevalence of infection than white MSM. We created a simulation model to assess the strength of existing hypotheses and data that account for these disparities. METHODS: We built a dynamic, stochastic, agent-based network model of black and white MSM aged 18-39 years in Atlanta, GA, USA, that incorporated race-specific individual and dyadic-level prevention and risk behaviours, network attributes, and care patterns...
April 18, 2017: Lancet HIV
https://www.readbyqxmd.com/read/28427967/mechanisms-underlying-hiv-associated-non-infectious-lung-disease
#16
REVIEW
Rachel M Presti, Sonia C Flores, Brent E Palmer, Jeffrey J Atkinson, Catherine R Lesko, Bryan Lau, Andrew P Fontenot, Jesse Roman, John F McDyer, Homer L Twigg
Pulmonary disease remains a primary source of morbidity and mortality in persons living with HIV (PLWH), although the advent of potent combination antiretroviral therapy (cART) has resulted in a shift from predominantly infectious to noninfectious pulmonary complications. PLWH are at high risk for chronic obstructive pulmonary disease, pulmonary hypertension, and lung cancer even in the era of cART. The underlying mechanisms of this are incompletely understood, but recent research in both human and animal models suggest that oxidative stress, expression of matrix metalloproteinases, and genetic instability may result in lung damage which predisposes PLWH to these conditions...
April 17, 2017: Chest
https://www.readbyqxmd.com/read/28427337/treatment-seeking-behaviour-in-low-and-middle-income-countries-estimated-using-a-bayesian-model
#17
Victor A Alegana, Jim Wright, Carla Pezzulo, Andrew J Tatem, Peter M Atkinson
BACKGROUND: Seeking treatment in formal healthcare for uncomplicated infections is vital to combating disease in low- and middle-income countries (LMICs). Healthcare treatment-seeking behaviour varies within and between communities and is modified by socio-economic, demographic, and physical factors. As a result, it remains a challenge to quantify healthcare treatment-seeking behaviour using a metric that is comparable across communities. Here, we present an application for transforming individual categorical responses (actions related to fever) to a continuous probabilistic estimate of fever treatment for one country in Sub-Saharan Africa (SSA)...
April 20, 2017: BMC Medical Research Methodology
https://www.readbyqxmd.com/read/28426775/dynamic-behaviors-of-a-modified-sir-model-in-epidemic-diseases-using-nonlinear-incidence-and-recovery-rates
#18
Gui-Hua Li, Yong-Xin Zhang
The transmission of infectious diseases has been studied by mathematical methods since 1760s, among which SIR model shows its advantage in its epidemiological description of spread mechanisms. Here we established a modified SIR model with nonlinear incidence and recovery rates, to understand the influence by any government intervention and hospitalization condition variation in the spread of diseases. By analyzing the existence and stability of the equilibria, we found that the basic reproduction number [Formula: see text] is not a threshold parameter, and our model undergoes backward bifurcation when there is limited number of hospital beds...
2017: PloS One
https://www.readbyqxmd.com/read/28426153/a-non-pathogenic-recombinant-leishmania-expressing-lipophosphoglycan-3-against-experimental-infection-with-leishmania-infantum
#19
Leila Pirdel, Safar Farajnia
Visceral leishmaniasis (VL) is caused by Leishmania infantum in the Mediterranean basin and affects primarily children and immunosuppressed individuals. Various strategies of vaccination have so far been examined by either protein or DNA without achievable complete protection against the disease. The live non-pathogenic lizard parasite, Leishmania tarentolae, expressing elected Leishmania antigens has recently provided a promising new approach as a safe and effective live vaccine candidate to prevent leishmaniasis...
April 20, 2017: Scandinavian Journal of Immunology
https://www.readbyqxmd.com/read/28425641/molecular-dynamics-simulations-of-early-steps-in-rna-mediated-conversion-of-prions
#20
Erik J Alred, Michael Nguyen, Maggie Martin, Ulrich Hansmann
The rate-limiting step in prion diseases is the initial transition of a prion protein from its native form into a mis-folded state in which the protein not only forms cell-toxic aggregates but also becomes infectious. Recent experiments implicate polyadenosine RNA as a possible agent for generating the initial seed. In order to understand the mechanism of RNA-mediated mis-folding and aggregation of prions, we dock polyadenosine RNA to mouse and human prion models. Changes in stability and secondary structure of the prions upon binding to polyadenosine RNA are evaluated by comparing molecular dynamics simulations of these complexes with that of the unbound prions...
April 20, 2017: Protein Science: a Publication of the Protein Society
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