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https://www.readbyqxmd.com/read/29339971/terzyme-a-tool-for-identification-and-analysis-of-the-plant-terpenome
#1
Piyush Priya, Archana Yadav, Jyoti Chand, Gitanjali Yadav
Background: Terpenoid hydrocarbons represent the largest and most ancient group of phytochemicals, such that the entire chemical library of a plant is often referred to as its 'terpenome'. Besides having numerous pharmacological properties, terpenes contribute to the scent of the rose, the flavors of cinnamon and the yellow of sunflowers. Rapidly increasing -omics datasets provide an unprecedented opportunity for terpenome detection, paving the way for automated web resources dedicated to phytochemical predictions in genomic data...
2018: Plant Methods
https://www.readbyqxmd.com/read/29338243/metadynamics-enhanced-markov-modeling-of-protein-dynamics
#2
Mithun Biswas, Benjamin Lickert, Gerhard Stock
Enhanced sampling techniques represent a versatile approach to account for rare conformational transitions in biomolecules. A particularly promising strategy is to combine massive parallel computing of short molecular dynamics (MD) trajectories (to sample the free energy landscape of the system) with Markov state modeling (to rebuild the kinetics from the sampled data). To obtain well-distributed initial structures for the short trajectories, it is proposed to employ Metadynamics MD, which quickly sweeps through the entire free energy landscape of interest...
January 16, 2018: Journal of Physical Chemistry. B
https://www.readbyqxmd.com/read/29338000/progression-of-the-first-stage-of-spontaneous-labour-a-prospective-cohort-study-in-two-sub-saharan-african-countries
#3
Olufemi T Oladapo, Joao Paulo Souza, Bukola Fawole, Kidza Mugerwa, Gleici Perdoná, Domingos Alves, Hayala Souza, Rodrigo Reis, Livia Oliveira-Ciabati, Alexandre Maiorano, Adesina Akintan, Francis E Alu, Lawal Oyeneyin, Amos Adebayo, Josaphat Byamugisha, Miriam Nakalembe, Hadiza A Idris, Ola Okike, Fernando Althabe, Vanora Hundley, France Donnay, Robert Pattinson, Harshadkumar C Sanghvi, Jen E Jardine, Özge Tunçalp, Joshua P Vogel, Mary Ellen Stanton, Meghan Bohren, Jun Zhang, Tina Lavender, Jerker Liljestrand, Petra Ten Hoope-Bender, Matthews Mathai, Rajiv Bahl, A Metin Gülmezoglu
BACKGROUND: Escalation in the global rates of labour interventions, particularly cesarean section and oxytocin augmentation, has renewed interest in a better understanding of natural labour progression. Methodological advancements in statistical and computational techniques addressing the limitations of pioneer studies have led to novel findings and triggered a re-evaluation of current labour practices. As part of the World Health Organization's Better Outcomes in Labour Difficulty (BOLD) project, which aimed to develop a new labour monitoring-to-action tool, we examined the patterns of labour progression as depicted by cervical dilatation over time in a cohort of women in Nigeria and Uganda who gave birth vaginally following a spontaneous labour onset...
January 2018: PLoS Medicine
https://www.readbyqxmd.com/read/29337986/the-e2-65a-mutation-disrupts-dynamic-binding-poses-of-sb269652-at-the-dopamine-d2-and-d3-receptors
#4
Ravi Kumar Verma, Ara M Abramyan, Mayako Michino, R Benjamin Free, David R Sibley, Jonathan A Javitch, J Robert Lane, Lei Shi
The dopamine D2 and D3 receptors (D2R and D3R) are important targets for antipsychotics and for the treatment of drug abuse. SB269652, a bitopic ligand that simultaneously binds both the orthosteric binding site (OBS) and a secondary binding pocket (SBP) in both D2R and D3R, was found to be a negative allosteric modulator. Previous studies identified Glu2.65 in the SBP to be a key determinant of both the affinity of SB269652 and the magnitude of its cooperativity with orthosteric ligands, as the E2.65A mutation decreased both of these parameters...
January 16, 2018: PLoS Computational Biology
https://www.readbyqxmd.com/read/29337285/comparison-of-clustering-approaches-with-application-to-dual-colour-protein-data
#5
Sabrina Siebert, Katja Ickstadt, Martin Schäfer, Yvonne Radon, Peter J Verveer
Cells communicate with their environment via proteins, located at the plasma membrane separating the interior of a cell from its surroundings. The spatial distribution of these proteins in the plasma membrane under different physiological conditions is of importance, since this may influence their signal transmission properties. In this study, the authors compare different methods such as hierarchical clustering, extensible Markov models and the gammics method for analysing such a spatial distribution. The methods are examined in a simulation study to determine their optimal use...
February 2018: IET Systems Biology
https://www.readbyqxmd.com/read/29336825/detecting-the-occurrence-of-indigenous-and-non-indigenous-megafauna-through-fishermen-knowledge-a-complementary-tool-to-coastal-and-port-surveys
#6
E Azzurro, L Bolognini, B Dragičević, D Drakulović, J Dulčić, E Fanelli, F Grati, J Kolitari, L Lipej, E Magaletti, O Marković, S Matić-Skoko, B Mavrič, N Milone, A Joksimović, J Tomanić, A Scarpato, P Tutman, D Vrdoljak, F Zappacosta
Marine bioinvasions and other rapid biodiversity changes require today integrating existing monitoring tools with other complementary detection strategies to provide a more efficient management. Here we explored the efficacy of fishermen observations and traditional port surveys to effectively track the occurrence of both indigenous and non-indigenous megafauna in the Adriatic Sea. This consisted mainly of mobile taxa such as fishes, crustaceans and molluscs. Port surveys using traps and nets within 10 major Adriatic harbours, were compared with the information obtained from 153 interviews with local fishermen...
January 11, 2018: Marine Pollution Bulletin
https://www.readbyqxmd.com/read/29336190/a-cost-effectiveness-analysis-of-calcipotriol-plus-betamethasone-dipropionate-aerosol-foam-versus-gel-for-the-topical-treatment-of-plaque-psoriasis
#7
Peter Foley, Sinead Garrett, Lasse Ryttig
BACKGROUND: Calcipotriol 50 µg/g and betamethasone 0.5 mg/g dipropionate (Cal/BD) aerosol foam formulation provides greater effectiveness and improved patient preference compared with traditional Cal/BD formulations for the topical treatment of plaque psoriasis. OBJECTIVE: To determine the cost-effectiveness of Cal/BD foam compared with Cal/BD gel from the Australian perspective. METHODS: A Markov model was developed to evaluate the cost-effectiveness of topical Cal/BD foam and gel for the treatment of people with plaque psoriasis...
January 16, 2018: Current Medical Research and Opinion
https://www.readbyqxmd.com/read/29335673/desistance-and-severity-of-alcohol-use-disorder-a-lifespan-developmental-investigation
#8
Matthew R Lee, Cassandra L Boness, Yoanna E McDowell, Alvaro Vergés, Douglas L Steinley, Kenneth J Sher
Key to an understanding of alcohol use disorder (AUD) are the drinking-related reductions that begin in young adulthood and continue throughout the adult lifespan. Research is needed to precisely characterize the form of these reductions, including possible developmental differences across the lifespan. Using U.S.-representative data, we estimated multiple-group Markov models characterizing longitudinal transitions among five drinking statuses and differences in transition patterns across six adult age periods...
2018: Clinical Psychological Science
https://www.readbyqxmd.com/read/29335659/recommendation-system-for-adaptive-learning
#9
Yunxiao Chen, Xiaoou Li, Jingchen Liu, Zhiliang Ying
An adaptive learning system aims at providing instruction tailored to the current status of a learner, differing from the traditional classroom experience. The latest advances in technology make adaptive learning possible, which has the potential to provide students with high-quality learning benefit at a low cost. A key component of an adaptive learning system is a recommendation system, which recommends the next material (video lectures, practices, and so on, on different skills) to the learner, based on the psychometric assessment results and possibly other individual characteristics...
January 2018: Applied Psychological Measurement
https://www.readbyqxmd.com/read/29334316/potential-therapeutic-and-economic-value-of-risk-stratified-treatment-as-initial-treatment-of-multiple-myeloma-in-europe
#10
Jennifer G Gaultney, Therese W Ng, Carin A Uyl-de Groot, Pieter Sonneveld, Erik H van Beers, Martin H van Vliet, William K Redekop
Biomarkers associated with prognosis in multiple myeloma (MM) can be used to stratify patients into risk categories. An attractive alternative to uniform treatment (UT), risk-stratified treatment (RST) is proposed where high-risk patients receive bortezomib-based regimens while standard-risk patients receive alternative less costly regimens. An early Markov-type decision analytic model evaluated the potential therapeutic and economic value of different RST strategies compared with UT in MM patients in key European countries...
January 15, 2018: Pharmacogenomics
https://www.readbyqxmd.com/read/29333672/controlled-pattern-imputation-for-sensitivity-analysis-of-longitudinal-binary-and-ordinal-outcomes-with-nonignorable-dropout
#11
Yongqiang Tang
The controlled imputation method refers to a class of pattern mixture models that have been commonly used as sensitivity analyses of longitudinal clinical trials with nonignorable dropout in recent years. These pattern mixture models assume that participants in the experimental arm after dropout have similar response profiles to the control participants or have worse outcomes than otherwise similar participants who remain on the experimental treatment. In spite of its popularity, the controlled imputation has not been formally developed for longitudinal binary and ordinal outcomes partially due to the lack of a natural multivariate distribution for such endpoints...
January 15, 2018: Statistics in Medicine
https://www.readbyqxmd.com/read/29333086/ethical-and-safety-issues-of-stem-cell-based-therapy
#12
REVIEW
Vladislav Volarevic, Bojana Simovic Markovic, Marina Gazdic, Ana Volarevic, Nemanja Jovicic, Nebojsa Arsenijevic, Lyle Armstrong, Valentin Djonov, Majlinda Lako, Miodrag Stojkovic
Results obtained from completed and on-going clinical studies indicate huge therapeutic potential of stem cell-based therapy in the treatment of degenerative, autoimmune and genetic disorders. However, clinical application of stem cells raises numerous ethical and safety concerns. In this review, we provide an overview of the most important ethical issues in stem cell therapy, as a contribution to the controversial debate about their clinical usage in regenerative and transplantation medicine. We describe ethical challenges regarding human embryonic stem cell (hESC) research, emphasizing that ethical dilemma involving the destruction of a human embryo is a major factor that may have limited the development of hESC-based clinical therapies...
2018: International Journal of Medical Sciences
https://www.readbyqxmd.com/read/29332946/optimal-groundwater-extraction-under-uncertainty-and-a-spatial-stock-externality
#13
Nathaniel H Merrill, Todd Guilfoos
We introduce a model that incorporates two important elements to estimating welfare gains from groundwater management: stochasticity and a spatial stock externality. We estimate welfare gains resulting from optimal management under uncertainty as well as a gradual stock externality that produces the dynamics of a large aquifer being slowly exhausted. This groundwater model imposes an important aspect of a depletable natural resource without the extreme assumption of complete exhaustion that is necessary in a traditional single cell (bathtub) model of groundwater extraction...
January 1, 2018: American Journal of Agricultural Economics
https://www.readbyqxmd.com/read/29331246/estimation-of-expected-dengue-seroprevalence-from-passive-epidemiological-surveillance-systems-in-selected-areas-of-argentina-a-proxy-to-evaluate-the-applicability-of-dengue-vaccination
#14
Pablo Orellano, Darío Vezzani, Nancy Quaranta, Julieta Reynoso, Oscar Daniel Salomón
BACKGROUND: Current recommendations about dengue vaccination by the World Health Organization depend on seroprevalence levels and serological status in populations and individuals. However, seroprevalence estimation may be difficult due to a diversity of factors. Thus, estimation through models using data from epidemiological surveillance systems could be an alternative procedure to achieve this goal. OBJECTIVE: To estimate the expected dengue seroprevalence in children of selected areas in Argentina, using a simple model based on data from passive epidemiological surveillance systems...
January 11, 2018: Vaccine
https://www.readbyqxmd.com/read/29329508/hospital-readmissions-and-the-day-of-the-week
#15
Aman Verma, Christian Rochefort, Guido Powell, David Buckeridge
Objectives Patients discharged from hospitals on a Friday (Friday discharges) are readmitted sooner (a shorter time-to-emergency-readmission) than those discharged on any other day of the week. To evaluate the cost-effectiveness of increasing weekend capacity, the effect estimate of Friday discharge on time-to-emergency-readmission needs to be precise. However, precise effect estimation is complicated by the confounding effect of differing healthcare-seeking behaviour and admission practices, and therefore different admission probability, by day of the week...
January 2018: Journal of Health Services Research & Policy
https://www.readbyqxmd.com/read/29329100/a-web-based-system-for-bayesian-benchmark-dose-estimation
#16
Kan Shao, Andrew J Shapiro
BACKGROUND: Benchmark dose (BMD) modeling is an important step in human health risk assessment and is used as the default approach to identify the point of departure for risk assessment. A probabilistic framework for dose-response assessment has been proposed and advocated by various institutions and organizations; therefore, a reliable tool is needed to provide distributional estimates for BMD and other important quantities in dose-response assessment. OBJECTIVES: We developed an online system for Bayesian BMD (BBMD) estimation and compared results from this software with U...
January 11, 2018: Environmental Health Perspectives
https://www.readbyqxmd.com/read/29328181/super-resolution-image-de-fencing-using-a-nonlocal-nonconvex-prior
#17
Sankaraganesh Jonna, Sukla Satapathy, Rajiv R Sahay
Today's smartphones/phablets/tablets are equipped with cameras that have enabled people to capture their favorite moments. However, images or videos taken at public places using inexpensive low-resolution cameras are often degraded by the presence of occlusions such as fences/barricades. In order to reconstruct a fence-free high-resolution image, we use a video of a scene captured by panning a hand-held camera and model the effects of various degradations. Initially, we obtain the spatial locations of fences by semantic segmentation and subsequently estimate the subpixel motion between the degraded low-resolution frames...
January 10, 2018: Applied Optics
https://www.readbyqxmd.com/read/29328096/approximate-bayesian-computation-techniques-for-optical-characterization-of-nanoparticle-clusters
#18
Ozan Burak Ericok, Ali Taylan Cemgil, Hakan Erturk
Characterization of nanoparticle aggregates from observed scattered light leads to a highly complex inverse problem. Even the forward model is so complex that it prohibits the use of classical likelihood-based inference methods. In this study, we compare four so-called likelihood-free methods based on approximate Bayesian computation (ABC) that requires only numeric simulation of the forward model without the need of evaluating a likelihood. In particular, rejection, Markov chain Monte Carlo, population Monte Carlo, and adaptive population Monte Carlo (APMC) are compared in terms of accuracy...
January 1, 2018: Journal of the Optical Society of America. A, Optics, Image Science, and Vision
https://www.readbyqxmd.com/read/29326152/decision-analytic-markov-model-weighting-expected-benefits-and-current-limitations-of-first-generation-bioresorbable-vascular-scaffolds-implications-for-manufacturers-and-next-device-iterations
#19
Davide Capodanno, Sergio Buccheri, Sara Romano, Piera Capranzano, Bruno Francaviglia, Corrado Tamburino
BACKGROUND: Relative benefits of bioresorbable vascular scaffolds (BVS) compared with everolimus-eluting stents (EES) are expected to accrue after complete bioresorption. METHODS AND RESULTS: We built a decision analytic Markov model comparing BVS and EES for a contemporary percutaneous coronary intervention population. Procedure-related morbidity and outcome data from the available literature were used to derive model probabilities. The net benefit of BVS and EES was estimated in terms of quality-adjusted life expectancy...
January 2018: Circulation. Cardiovascular Interventions
https://www.readbyqxmd.com/read/29324054/bayesian-diagnostics-of-hidden-markov-structural-equation-models-with-missing-data
#20
Jingheng Cai, Ming Ouyang, Kai Kang, Xinyuan Song
Cocaine is a type of drug that functions to increase the availability of the neurotransmitter dopamine in the brain. However, cocaine dependence or abuse is highly related to an increased risk of psychiatric disorders and deficits in cognitive performance, attention, and decision-making abilities. Given the chronic and persistent features of drug addiction, the progression of abstaining from cocaine often evolves across several states, such as addiction to, moderate dependence on, and swearing off cocaine. Hidden Markov models (HMMs) are well suited to the characterization of longitudinal data in terms of a set of unobservable states, and have increasingly been used to uncover the dynamic heterogeneity in progressive diseases or activities...
January 11, 2018: Multivariate Behavioral Research
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