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Discrete event simulation

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https://www.readbyqxmd.com/read/28226785/mechanisms-of-stochastic-focusing-and-defocusing-in-biological-reaction-networks-insight-from-accurate-chemical-master-equation-acme-solutions
#1
Gamze Giirsoy, Anna Terebus, Youfang Cao, Jie Liang, Gamze Gursoy, Anna Terebus, Youfang Cao, Jie Liang, Gamze Gursoy, Youfang Cao, Anna Terebus, Jie Liang
Stochasticity plays important roles in regulation of biochemical reaction networks when the copy numbers of molecular species are small. Studies based on Stochastic Simulation Algorithm (SSA) has shown that a basic reaction system can display stochastic focusing (SF) by increasing the sensitivity of the network as a result of the signal noise. Although SSA has been widely used to study stochastic networks, it is ineffective in examining rare events and this becomes a significant issue when the tails of probability distributions are relevant as is the case of SF...
August 2016: Conference Proceedings: Annual International Conference of the IEEE Engineering in Medicine and Biology Society
https://www.readbyqxmd.com/read/28222957/reducing-patient-waiting-times-for-radiation-therapy-and-improving-the-treatment-planning-process-a-discrete-event-simulation-model-radiation-treatment-planning
#2
V Babashov, I Aivas, M A Begen, J Q Cao, G Rodrigues, D D'Souza, M Lock, G S Zaric
AIMS: We analysed the radiotherapy planning process at the London Regional Cancer Program to determine the bottlenecks and to quantify the effect of specific resource levels with the goal of reducing waiting times. MATERIALS AND METHODS: We developed a discrete-event simulation model of a patient's journey from the point of referral to a radiation oncologist to the start of radiotherapy, considering the sequential steps and resources of the treatment planning process...
February 17, 2017: Clinical Oncology: a Journal of the Royal College of Radiologists
https://www.readbyqxmd.com/read/28219461/evaluating-the-impact-of-pharmacies-on-pandemic-influenza-vaccine-administration
#3
Joy Schwerzmann, Samuel B Graitcer, Barbara Jester, David Krahl, Daniel Jernigan, Carolyn B Bridges, Joseph Miller
OBJECTIVES: The objective of this study was to quantify the potential retail pharmacy vaccine administration capacity and its possible impact on pandemic influenza vaccine uptake. METHODS: We developed a discrete event simulation model by use of ExtendSim software (Imagine That Inc, San Jose, CA) to forecast the potential effect of retail pharmacy vaccine administration on total weekly vaccine administration and the time needed to reach 80% vaccination coverage with a single dose of vaccine per person...
February 21, 2017: Disaster Medicine and Public Health Preparedness
https://www.readbyqxmd.com/read/28209427/event-triggered-fault-detection-for-a-class-of-discrete-time-linear-systems-using-interval-observers
#4
Zhi-Hui Zhang, Guang-Hong Yang
This paper provides a novel event-triggered fault detection (FD) scheme for discrete-time linear systems. First, an event-triggered interval observer is proposed to generate the upper and lower residuals by taking into account the influence of the disturbances and the event error. Second, the robustness of the residual interval against the disturbances and the fault sensitivity are improved by introducing l1 and H∞ performances. Third, dilated linear matrix inequalities are used to decouple the Lyapunov matrices from the system matrices...
February 13, 2017: ISA Transactions
https://www.readbyqxmd.com/read/28199265/a-decision-support-approach-for-provider-scheduling-in-a-patient-centered-medical-home
#5
Renata Konrad, Sarah Ficarra, Catherine Danko, Rachel Wallace, Cliona Archambeault
The patient-centered medical home (PCMH) has been proposed as a viable and medically effective model of primary care delivery. The fundamental principles of a PCMH address increased access and offer new ways to organize a practice. Creating provider schedules able to satisfy the operational and organizational constraints imposed by this type of delivery model is a challenging, complex, and time-consuming task.This article presents a two-step approach for scheduling providers and prospectively assessing the consequences of various schedules on patient throughput without experimenting on the real-world system...
January 2017: Journal of Healthcare Management / American College of Healthcare Executives
https://www.readbyqxmd.com/read/28186909/finite-time-state-estimation-for-recurrent-delayed-neural-networks-with-component-based-event-triggering-protocol
#6
Licheng Wang, Zidong Wang, Guoliang Wei, Fuad E Alsaadi
This paper deals with the event-based finite-time state estimation problem for a class of discrete-time stochastic neural networks with mixed discrete and distributed time delays. In order to mitigate the burden of data communication, a general component-based event-triggered transmission mechanism is proposed to determine whether the measurement output should be released to the estimator at certain time-point according to a specific triggering condition. A new concept of finite-time boundedness in the mean square is put forward to quantify the estimation performance by introducing a settling-like time function...
February 6, 2017: IEEE Transactions on Neural Networks and Learning Systems
https://www.readbyqxmd.com/read/28185566/a-continuous-analog-of-run-length-distributions-reflecting-accumulated-fractionation-events
#7
Zhe Yu, David Sankoff
BACKGROUND: We propose a new, continuous model of the fractionation process (duplicate gene deletion after polyploidization) on the real line. The aim is to infer how much DNA is deleted at a time, based on segment lengths for alternating deleted (invisible) and undeleted (visible) regions. RESULTS: After deriving a number of analytical results for "one-sided" fractionation, we undertake a series of simulations that help us identify the distribution of segment lengths as a gamma with shape and rate parameters evolving over time...
November 11, 2016: BMC Bioinformatics
https://www.readbyqxmd.com/read/28147534/estimating-rare-events-in-biochemical-systems-using-conditional-sampling
#8
V S Sundar
The paper focuses on development of variance reduction strategies to estimate rare events in biochemical systems. Obtaining this probability using brute force Monte Carlo simulations in conjunction with the stochastic simulation algorithm (Gillespie's method) is computationally prohibitive. To circumvent this, important sampling tools such as the weighted stochastic simulation algorithm and the doubly weighted stochastic simulation algorithm have been proposed. However, these strategies require an additional step of determining the important region to sample from, which is not straightforward for most of the problems...
January 28, 2017: Journal of Chemical Physics
https://www.readbyqxmd.com/read/28113244/stem-cell-plasticity-and-niche-dynamics-in-cancer-progression
#9
Noemi Picco, Robert A Gatenby, Alexander R A Anderson
OBJECTIVE: Cancer stem cells (CSCs) have been hypothesized to initiate and drive tumor growth and recurrence due to their self-renewal ability. If correct, this hypothesis implies that successful therapy must focus primarily on eradication of this CSC fraction. However, recent evidence suggests stemness is niche dependent and may represent one of many phenotypic states that can be accessed by many cancer genotypes when presented with specific environmental cues. A better understanding of the relationship of stemness to niche-related phenotypic plasticity could lead to alternative treatment strategies...
September 8, 2016: IEEE Transactions on Bio-medical Engineering
https://www.readbyqxmd.com/read/28106681/using-simulation-to-model-improvements-in-pediatric-bed-placement-in-an-acute-care-hospital
#10
Judith Lambton, Theresa Roeder, Robert Saltzman, Lila Param, Roxanne Fernandes
OBJECTIVE: The objective of this project was to use an interdisciplinary approach to analyze strategies through simulation technology for improving patient flow in a pediatric hospital. BACKGROUND: Various statistics have been offered on the number of children admitted annually to hospitals. For administrators, particularly in smaller systems, the financial burden of equipping and staffing pediatric units often outweighs the moral desire to maintain a pediatric unit as a viable option for patients and pediatricians...
February 2017: Journal of Nursing Administration
https://www.readbyqxmd.com/read/28100215/a-discrete-event-simulation-model-to-evaluate-the-use-of-community-services-in-the-treatment-of-patients-with-parkinson-s-disease-in-the-united-kingdom
#11
Reda Lebcir, Eren Demir, Raheelah Ahmad, Christos Vasilakis, David Southern
BACKGROUND: The number of people affected by Parkinson's disease (PD) is increasing in the United Kingdom driven by population ageing. The treatment of the disease is complex, resource intensive and currently there is no known cure to PD. The National Health Service (NHS), the public organisation delivering healthcare in the UK, is under financial pressures. There is a need to find innovative ways to improve the operational and financial performance of treating PD patients. The use of community services is a new and promising way of providing treatment and care to PD patients at reduced cost than hospital care...
January 18, 2017: BMC Health Services Research
https://www.readbyqxmd.com/read/28098397/regression-analysis-of-mixed-panel-count-data-with-dependent-terminal-events
#12
Guanglei Yu, Liang Zhu, Yang Li, Jianguo Sun, Leslie L Robison
Event history studies are commonly conducted in many fields, and a great deal of literature has been established for the analysis of the two types of data commonly arising from these studies: recurrent event data and panel count data. The former arises if all study subjects are followed continuously, while the latter means that each study subject is observed only at discrete time points. In reality, a third type of data, a mixture of the two types of the data earlier, may occur and furthermore, as with the first two types of the data, there may exist a dependent terminal event, which may preclude the occurrences of recurrent events of interest...
January 18, 2017: Statistics in Medicine
https://www.readbyqxmd.com/read/28097712/force-generation-by-titin-folding
#13
Zsolt Mártonfalvi, Pasquale Bianco, Katalin Naftz, György G Ferenczy, Miklós Kellermayer
Titin is a giant protein that provides elasticity to muscle. As the sarcomere is stretched, titin extends hierarchically according to the mechanics of its segments. Whether titin's globular domains unfold during this process and how such unfolded domains might contribute to muscle contractility are strongly debated. To explore the force-dependent folding mechanisms, here we manipulated skeletal-muscle titin molecules with high-resolution optical tweezers. In force-clamp mode, after quenching the force (<10 pN), extension fluctuated without resolvable discrete events...
January 18, 2017: Protein Science: a Publication of the Protein Society
https://www.readbyqxmd.com/read/28092955/flow-optimization-in-vascular-networks
#14
Radu C Cascaval, Ciro D'Apice, Maria Pia D'Arienzo, Rosanna Manzo
The development of mathematical models for studying phenomena observed in vascular networks is very useful for its potential applications in medicine and physiology. Detailed 3D studies of flow in the arterial system based on the Navier-Stokes equations require high computational power, hence reduced models are often used, both for the constitutive laws and the spatial domain. In order to capture the major features of the phenomena under study, such as variations in arterial pressure and flow velocity, the resulting PDE models on networks require appropriate junction and boundary conditions...
June 1, 2017: Mathematical Biosciences and Engineering: MBE
https://www.readbyqxmd.com/read/28076183/markov-influence-diagrams
#15
Francisco J Díez, Mar Yebra, Iñigo Bermejo, Miguel A Palacios-Alonso, Manuel Arias Calleja, Manuel Luque, Jorge Pérez-Martín
Markov influence diagrams (MIDs) are a new type of probabilistic graphical model that extends influence diagrams in the same way that Markov decision trees extend decision trees. They have been designed to build state-transition models, mainly in medicine, and perform cost-effectiveness analyses. Using a causal graph that may contain several variables per cycle, MIDs can model various patient characteristics without multiplying the number of states; in particular, they can represent the history of the patient without using tunnel states...
February 2017: Medical Decision Making: An International Journal of the Society for Medical Decision Making
https://www.readbyqxmd.com/read/28052886/intestinal-rehabilitation-for-children-with-intestinal-failure-is-cost-effective-a-simulation-study
#16
Henk Groen, Esther G Neelis, Marten J Poley, Joanne F Olieman, René Scheenstra, Paul Fm Krabbe, Gerard Dijkstra, Edmond Hhm Rings
BACKGROUND: Children with intestinal failure (IF) depend on parenteral nutrition (PN). The goal in the treatment of IF is to wean children off PN through intestinal rehabilitation (IR). Although the healthcare burden of IF is enormous, to our knowledge there has been no previous cost-effectiveness analysis in pediatric IF including IR. OBJECTIVE: We sought to determine the cost-effectiveness of IR in terms of costs and life-years. DESIGN: We simulated the treatment of IF in children in a discrete-event model...
January 4, 2017: American Journal of Clinical Nutrition
https://www.readbyqxmd.com/read/28045348/the-impact-of-increasing-staff-resources-on-patient-flow-in-a-psychiatric-emergency-service
#17
Lara Chepenik, Edieal Pinker
OBJECTIVE: The study illustrates the use of approaches based on queuing theory to understand bottlenecks in patient flow. A queuing simulation was used to predict the potential benefits of additional clinical personnel on patient flow through a psychiatric emergency service (PES). METHODS: A discrete-event simulation model was calibrated on the basis of two months of data collected in a PES. This model examined the effects of adding between .5 (half-time) and three additional providers to the 8 a...
January 3, 2017: Psychiatric Services: a Journal of the American Psychiatric Association
https://www.readbyqxmd.com/read/28025930/cost-effectiveness-of-treatment-sequences-of-chemotherapies-and-targeted-biologics-for-elderly-metastatic-colorectal-cancer-patients
#18
Rohan C Parikh, Xianglin L Du, Morgan O Robert, David R Lairson
BACKGROUND: Treatment patterns for metastatic colorectal cancer (mCRC) patients have changed considerably over the last decade with the introduction of new chemotherapies and targeted biologics. These treatments are often administered in various sequences with limited evidence regarding their cost-effectiveness. OBJECTIVE: To conduct a pharmacoeconomic evaluation of commonly administered treatment sequences among elderly mCRC patients. METHODS: A probabilistic discrete event simulation model assuming Weibull distribution was developed to evaluate the cost-effectiveness of the following common treatment sequences: (a) first-line oxaliplatin/irinotecan followed by second-line oxaliplatin/irinotecan + bevacizumab (OI-OIB); (b) first-line oxaliplatin/irinotecan + bevacizumab followed by second-line oxaliplatin/irinotecan + bevacizumab (OIB-OIB); (c) OI-OIB followed by a third-line targeted biologic (OI-OIB-TB); and (d) OIB-OIB followed by a third-line targeted biologic (OIB-OIB-TB)...
January 2017: Journal of Managed Care & Specialty Pharmacy
https://www.readbyqxmd.com/read/28017865/a-multi-scale-method-for-modeling-degradation-of-bioresorbable-polyesters
#19
Taohong Zhang, Shaonan Zhou, Xiaohao Gao, Zhiyong Yang, Leran Sun, Dezheng Zhang
: A multi-scale model using the cellular automata (CA) and kinetic Monte Carlo (KMC) methods is presented to simulate the degradation process of bioresorbable polyesters such as polylactide (PLA), polyglycolide (PGA) and their copolymers. The model considers the underlying chemical and physical events such as polymer chain scission, oligomer production, crystallization induced by polymer chain scissions, oligomer diffusion and microstructure evolution due to erosion of the small chains...
December 23, 2016: Acta Biomaterialia
https://www.readbyqxmd.com/read/28008769/a-discrete-event-simulation-to-model-the-cost-utility-of-fingolimod-and-natalizumab-in-rapidly-evolving-severe-relapsing-remitting-multiple-sclerosis-in-the-uk
#20
Stephen Montgomery, Maciej Maruszczak, David Slater, Jeanette Kusel, Richard Nicholas, Nicholas Adlard
OBJECTIVE: Two disease modifying therapies are licensed in the EU for use in rapidly-evolving severe (RES) relapsing-remitting multiple sclerosis (RRMS), fingolimod and natalizumab. Here a discrete event simulation (DES) model to analyse the cost-effectiveness of natalizumab and fingolimod in the RES population, from the perspective of the National Health Service (NHS) in the UK, is reported. METHODS: A DES model was developed to track individual RES patients, based on Expanded Disability Status Scale scores...
December 23, 2016: Journal of Medical Economics
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