Theoretical Biology and Medical Modelling最新文献

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Forecasting infectious disease emergence subject to seasonal forcing. 预测受季节强迫影响的传染病的出现。
Theoretical Biology and Medical Modelling Pub Date : 2017-09-06 DOI: 10.1186/s12976-017-0063-8
Paige B Miller, Eamon B O'Dea, Pejman Rohani, John M Drake
{"title":"Forecasting infectious disease emergence subject to seasonal forcing.","authors":"Paige B Miller, Eamon B O'Dea, Pejman Rohani, John M Drake","doi":"10.1186/s12976-017-0063-8","DOIUrl":"10.1186/s12976-017-0063-8","url":null,"abstract":"<p><strong>Background: </strong>Despite high vaccination coverage, many childhood infections pose a growing threat to human populations. Accurate disease forecasting would be of tremendous value to public health. Forecasting disease emergence using early warning signals (EWS) is possible in non-seasonal models of infectious diseases. Here, we assessed whether EWS also anticipate disease emergence in seasonal models.</p><p><strong>Methods: </strong>We simulated the dynamics of an immunizing infectious pathogen approaching the tipping point to disease endemicity. To explore the effect of seasonality on the reliability of early warning statistics, we varied the amplitude of fluctuations around the average transmission. We proposed and analyzed two new early warning signals based on the wavelet spectrum. We measured the reliability of the early warning signals depending on the strength of their trend preceding the tipping point and then calculated the Area Under the Curve (AUC) statistic.</p><p><strong>Results: </strong>Early warning signals were reliable when disease transmission was subject to seasonal forcing. Wavelet-based early warning signals were as reliable as other conventional early warning signals. We found that removing seasonal trends, prior to analysis, did not improve early warning statistics uniformly.</p><p><strong>Conclusions: </strong>Early warning signals anticipate the onset of critical transitions for infectious diseases which are subject to seasonal forcing. Wavelet-based early warning statistics can also be used to forecast infectious disease.</p>","PeriodicalId":51195,"journal":{"name":"Theoretical Biology and Medical Modelling","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2017-09-06","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1186/s12976-017-0063-8","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"35327309","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 25
Test-and-treat approach to HIV/AIDS: a primer for mathematical modeling. 艾滋病毒/艾滋病的检测和治疗方法:数学建模入门。
Theoretical Biology and Medical Modelling Pub Date : 2017-09-05 DOI: 10.1186/s12976-017-0062-9
Kyeongah Nah, Hiroshi Nishiura, Naho Tsuchiya, Xiaodan Sun, Yusuke Asai, Akifumi Imamura
{"title":"Test-and-treat approach to HIV/AIDS: a primer for mathematical modeling.","authors":"Kyeongah Nah,&nbsp;Hiroshi Nishiura,&nbsp;Naho Tsuchiya,&nbsp;Xiaodan Sun,&nbsp;Yusuke Asai,&nbsp;Akifumi Imamura","doi":"10.1186/s12976-017-0062-9","DOIUrl":"https://doi.org/10.1186/s12976-017-0062-9","url":null,"abstract":"<p><p>The public benefit of test-and-treat has induced a need to justify goodness for the public, and mathematical modeling studies have played a key role in designing and evaluating the test-and-treat strategy for controlling HIV/AIDS. Here we briefly and comprehensively review the essence of contemporary understanding of the test-and-treat policy through mathematical modeling approaches and identify key pitfalls that have been identified to date. While the decrease in HIV incidence is achieved with certain coverages of diagnosis, care and continued treatment, HIV prevalence is not necessarily decreased and sometimes the test-and-treat is accompanied by increased long-term cost of antiretroviral therapy (ART). To confront with the complexity of assessment on this policy, the elimination threshold or the effective reproduction number has been proposed for its use in determining the overall success to anticipate the eventual elimination. Since the publication of original model in 2009, key issues of test-and-treat modeling studies have been identified, including theoretical problems surrounding the sexual partnership network, heterogeneities in the transmission dynamics, and realistic issues of achieving and maintaining high treatment coverage in the most hard-to-reach populations. To explicitly design country-specific control policy, quantitative modeling approaches to each single setting with differing epidemiological context would require multi-disciplinary collaborations among clinicians, public health practitioners, laboratory technologists, epidemiologists and mathematical modelers.</p>","PeriodicalId":51195,"journal":{"name":"Theoretical Biology and Medical Modelling","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2017-09-05","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1186/s12976-017-0062-9","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"35471692","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 12
Theory of synergistic effects: Hill-type response surfaces as 'null-interaction' models for mixtures. 协同效应理论:作为混合物 "无相互作用 "模型的山丘型响应面。
Theoretical Biology and Medical Modelling Pub Date : 2017-08-02 DOI: 10.1186/s12976-017-0060-y
Michael Schindler
{"title":"Theory of synergistic effects: Hill-type response surfaces as 'null-interaction' models for mixtures.","authors":"Michael Schindler","doi":"10.1186/s12976-017-0060-y","DOIUrl":"10.1186/s12976-017-0060-y","url":null,"abstract":"<p><strong>Background: </strong>The classification of effects caused by mixtures of agents as synergistic, antagonistic or additive depends critically on the reference model of 'null interaction'. Two main approaches are currently in use, the Additive Dose (ADM) or concentration addition (CA) and the Multiplicative Survival (MSM) or independent action (IA) models. We compare several response surface models to a newly developed Hill response surface, obtained by solving a logistic partial differential equation (PDE). Assuming that a mixture of chemicals with individual Hill-type dose-response curves can be described by an n-dimensional logistic function, Hill's differential equation for pure agents is replaced by a PDE for mixtures whose solution provides Hill surfaces as 'null-interaction' models and relies neither on Bliss independence or Loewe additivity nor uses Chou's unified general theory.</p><p><strong>Methods: </strong>An n-dimensional logistic PDE decribing the Hill-type response of n-component mixtures is solved. Appropriate boundary conditions ensure the correct asymptotic behaviour. Mathematica 11 (Wolfram, Mathematica Version 11.0, 2016) is used for the mathematics and graphics presented in this article.</p><p><strong>Results: </strong>The Hill response surface ansatz can be applied to mixtures of compounds with arbitrary Hill parameters. Restrictions which are required when deriving analytical expressions for response surfaces from other principles, are unnecessary. Many approaches based on Loewe additivity turn out be special cases of the Hill approach whose increased flexibility permits a better description of 'null-effect' responses. Missing sham-compliance of Bliss IA, known as Colby's model in agrochemistry, leads to incompatibility with the Hill surface ansatz. Examples of binary and ternary mixtures illustrate the differences between the approaches. For Hill-slopes close to one and doses below the half-maximum effect doses MSM (Colby, Bliss, Finney, Abbott) predicts synergistic effects where the Hill model indicates 'null-interaction'. These differences increase considerably with increasing steepness of the individual dose-response curves.</p><p><strong>Conclusion: </strong>The Hill response surface ansatz contains the Loewe additivity concept as a special case and is incompatible with Bliss independent action. Hence, when synergistic effects are claimed, those dose combinations deserve special attention where the differences between independent action approaches and Hill estimations are large.</p>","PeriodicalId":51195,"journal":{"name":"Theoretical Biology and Medical Modelling","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2017-08-02","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5541435/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"35237740","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Transmission dynamics of cholera in Yemen, 2017: a real time forecasting. 2017年也门霍乱传播动态:实时预测
Theoretical Biology and Medical Modelling Pub Date : 2017-07-26 DOI: 10.1186/s12976-017-0061-x
Hiroshi Nishiura, Shinya Tsuzuki, Baoyin Yuan, Takayuki Yamaguchi, Yusuke Asai
{"title":"Transmission dynamics of cholera in Yemen, 2017: a real time forecasting.","authors":"Hiroshi Nishiura,&nbsp;Shinya Tsuzuki,&nbsp;Baoyin Yuan,&nbsp;Takayuki Yamaguchi,&nbsp;Yusuke Asai","doi":"10.1186/s12976-017-0061-x","DOIUrl":"https://doi.org/10.1186/s12976-017-0061-x","url":null,"abstract":"<p><strong>Background: </strong>A large epidemic of cholera, caused by Vibrio cholerae, serotype Ogawa, has been ongoing in Yemen, 2017. To improve the situation awareness, the present study aimed to forecast the cholera epidemic, explicitly addressing the reporting delay and ascertainment bias.</p><p><strong>Methods: </strong>Using weekly incidence of suspected cases, updated as a revised epidemic curve every week, the reporting delay was explicitly incorporated into the estimation model. Using the weekly case fatality risk as calculated by the World Health Organization, ascertainment bias was adjusted, enabling us to parameterize the family of logistic curves (i.e., logistic and generalized logistic models) for describing the unbiased incidence in 2017.</p><p><strong>Results: </strong>The cumulative incidence at the end of the epidemic, was estimated at 790,778 (95% CI: 700,495, 914,442) cases and 767,029 (95% CI: 690,877, 871,671) cases, respectively, by using logistic and generalized logistic models. It was also estimated that we have just passed through the epidemic peak by week 26, 2017. From week 27 onwards, the weekly incidence was predicted to decrease.</p><p><strong>Conclusions: </strong>Cholera epidemic in Yemen, 2017 was predicted to soon start to decrease. If the weekly incidence is reported in the up-to-the-minute manner and updated in later weeks, not a single data point but the entire epidemic curve must be precisely updated.</p>","PeriodicalId":51195,"journal":{"name":"Theoretical Biology and Medical Modelling","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2017-07-26","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1186/s12976-017-0061-x","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"35201949","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 34
Modelling infectious diseases with relapse: a case study of HSV-2. 传染性疾病复发模型:单纯疱疹病毒2型的个案研究。
Theoretical Biology and Medical Modelling Pub Date : 2017-07-17 DOI: 10.1186/s12976-017-0059-4
Jinliang Wang, Xiaoqing Yu, Heidi L Tessmer, Toshikazu Kuniya, Ryosuke Omori
{"title":"Modelling infectious diseases with relapse: a case study of HSV-2.","authors":"Jinliang Wang,&nbsp;Xiaoqing Yu,&nbsp;Heidi L Tessmer,&nbsp;Toshikazu Kuniya,&nbsp;Ryosuke Omori","doi":"10.1186/s12976-017-0059-4","DOIUrl":"https://doi.org/10.1186/s12976-017-0059-4","url":null,"abstract":"<p><strong>Background: </strong>Herpes Simplex Virus Type 2 (HSV-2) is one of the most common sexually transmitted diseases. Although there is still no licensed vaccine for HSV-2, a theoretical investigation of the potential effects of a vaccine is considered important and has recently been conducted by several researchers. Although compartmental mathematical models were considered for each special case in the previous studies, as yet there are few global stability results.</p><p><strong>Results: </strong>In this paper, we formulate a multi-group SVIRI epidemic model for HSV-2, which enables us to consider the effects of vaccination, of waning vaccine immunity, and of infection relapse. Since the number of groups is arbitrary, our model can be applied to various structures such as risk, sex, and age group structures. For our model, we define the basic reproduction number ℜ<sub>0</sub> and prove that if ℜ<sub>0</sub>≤1, then the disease-free equilibrium is globally asymptotically stable, whereas if ℜ<sub>0</sub>>1, then the endemic equilibrium is so. Based on this global stability result, we estimate ℜ<sub>0</sub> for HSV-2 by applying our model to the risk group structure and using US data from 2001 to 2014. Through sensitivity analysis, we find that ℜ<sub>0</sub> is approximately in the range of 2-3. Moreover, using the estimated parameters, we discuss the optimal vaccination strategy for the eradication of HSV-2.</p><p><strong>Conclusions: </strong>Through discussion of the optimal vaccination strategy, we come to the following conclusions. (1) Improving vaccine efficacy is more effective than increasing the number of vaccines. (2) Although the transmission risk in female individuals is higher than that in male individuals, distributing the available vaccines almost equally between female and male individuals is more effective than concentrating them within the female population.</p>","PeriodicalId":51195,"journal":{"name":"Theoretical Biology and Medical Modelling","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2017-07-17","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1186/s12976-017-0059-4","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"35177364","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 6
Possible contribution of quantum-like correlations to the placebo effect: consequences on blind trials. 量子相关性对安慰剂效应的可能贡献:盲法试验的结果。
Theoretical Biology and Medical Modelling Pub Date : 2017-06-02 DOI: 10.1186/s12976-017-0058-5
Francis Beauvais
{"title":"Possible contribution of quantum-like correlations to the placebo effect: consequences on blind trials.","authors":"Francis Beauvais","doi":"10.1186/s12976-017-0058-5","DOIUrl":"https://doi.org/10.1186/s12976-017-0058-5","url":null,"abstract":"<p><strong>Background: </strong>Factors that participate in the biological changes associated with a placebo are not completely understood. Natural evolution, mean regression, concomitant procedures and other non specific effects are well-known factors that contribute to the \"placebo effect\". In this article, we suggest that quantum-like correlations predicted by a probabilistic modeling could also play a role.</p><p><strong>Results: </strong>An elementary experiment in biology or medicine comparing the biological changes associated with two placebos is modeled. The originality of this modeling is that experimenters, biological system and their interactions are described together from the standpoint of a participant who is uninvolved in the measurement process. Moreover, the small random probability fluctuations of a \"real\" experiment are also taken into account. If both placebos are inert (with only different labels), common sense suggests that the biological changes associated with the two placebos should be comparable. However, the consequence of this modeling is the possibility for two placebos to be associated with different outcomes due to the emergence of quantum-like correlations.</p><p><strong>Conclusion: </strong>The association of two placebos with different outcomes is counterintuitive and this modeling could give a framework for some unexplained observations where mere placebos are compared (in some alternative medicines for example). This hypothesis can be tested in blind trials by comparing local vs. remote assessment of correlations.</p>","PeriodicalId":51195,"journal":{"name":"Theoretical Biology and Medical Modelling","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2017-06-02","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1186/s12976-017-0058-5","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"35059452","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 5
Markov modeling in hepatitis B screening and linkage to care. 乙型肝炎筛查中的马尔可夫模型及其与护理的联系。
Theoretical Biology and Medical Modelling Pub Date : 2017-05-18 DOI: 10.1186/s12976-017-0057-6
Martin A Sehr, Kartik D Joshi, John M Fontanesi, Robert J Wong, Robert R Bitmead, Robert G Gish
{"title":"Markov modeling in hepatitis B screening and linkage to care.","authors":"Martin A Sehr,&nbsp;Kartik D Joshi,&nbsp;John M Fontanesi,&nbsp;Robert J Wong,&nbsp;Robert R Bitmead,&nbsp;Robert G Gish","doi":"10.1186/s12976-017-0057-6","DOIUrl":"https://doi.org/10.1186/s12976-017-0057-6","url":null,"abstract":"<p><strong>Background: </strong>With up to 240 million people chronically infected with hepatitis B worldwide, including an estimated 2 million in the United States, widespread screening is needed to link the infected to care and decrease the possible consequences of untreated infection, including liver cancer, cirrhosis and death. Screening is currently fraught with challenges in both the developed and developing world. New point-of-care tests may have advantages over standard-of-care tests in terms of cost-effectiveness and linkage to care. Stochastic modeling is applied here for relative utility assessment of point-of-care tests and standard-of-care tests for screening.</p><p><strong>Methods: </strong>We analyzed effects of point-of-care versus standard-of-care testing using Markov models for disease progression in individual patients. Simulations of large cohorts with distinctly quantified models permitted the assessment of particular screening schemes. The validity of the trends observed is supported by sensitivity analyses for the simulation parameters.</p><p><strong>Results: </strong>Increased utilization of point-of-care screening was shown to decrease hepatitis B-related mortalities and increase life expectancy at low projected expense.</p><p><strong>Conclusions: </strong>The results suggest that standard-of-care screening should be substituted by point-of-care tests resulting in improved linkage to care and decrease in long-term complications.</p>","PeriodicalId":51195,"journal":{"name":"Theoretical Biology and Medical Modelling","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2017-05-18","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1186/s12976-017-0057-6","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"35008726","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 9
Image-driven modeling of the proliferation and necrosis of glioblastoma multiforme. 多形性胶质母细胞瘤增殖和坏死的图像驱动建模。
Theoretical Biology and Medical Modelling Pub Date : 2017-05-02 DOI: 10.1186/s12976-017-0056-7
Vishal Patel, Leith Hathout
{"title":"Image-driven modeling of the proliferation and necrosis of glioblastoma multiforme.","authors":"Vishal Patel,&nbsp;Leith Hathout","doi":"10.1186/s12976-017-0056-7","DOIUrl":"https://doi.org/10.1186/s12976-017-0056-7","url":null,"abstract":"<p><strong>Background: </strong>The heterogeneity of response to treatment in patients with glioblastoma multiforme suggests that the optimal therapeutic approach incorporates an individualized assessment of expected lesion progression. In this work, we develop a novel computational model for the proliferation and necrosis of glioblastoma multiforme.</p><p><strong>Methods: </strong>The model parameters are selected based on the magnetic resonance imaging features of each tumor, and the proposed technique accounts for intrinsic cell division, tumor cell migration along white matter tracts, as well as central tumor necrosis. As a validation of this approach, tumor growth is simulated in the brain of a healthy adult volunteer using parameters derived from the imaging of a patient with glioblastoma multiforme. A mutual information metric is calculated between the simulated tumor profile and observed tumor.</p><p><strong>Results: </strong>The tumor progression profile generated by the proposed model is compared with those produced by existing models and with the actual observed tumor progression. Both qualitative and quantitative analyses show that the model introduced in this work replicates the observed progression of glioblastoma more accurately relative to prior techniques.</p><p><strong>Conclusions: </strong>This image-driven model generates improved tumor progression profiles and may contribute to the development of more reliable prognostic estimates in patients with glioblastoma multiforme.</p>","PeriodicalId":51195,"journal":{"name":"Theoretical Biology and Medical Modelling","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2017-05-02","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1186/s12976-017-0056-7","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"34962582","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 9
A highly pathogenic simian/human immunodeficiency virus effectively produces infectious virions compared with a less pathogenic virus in cell culture. 在细胞培养中,与致病性较低的病毒相比,高致病性猴/人免疫缺陷病毒能有效地产生感染性病毒粒子。
Theoretical Biology and Medical Modelling Pub Date : 2017-04-21 DOI: 10.1186/s12976-017-0055-8
Shoya Iwanami, Yusuke Kakizoe, Satoru Morita, Tomoyuki Miura, Shinji Nakaoka, Shingo Iwami
{"title":"A highly pathogenic simian/human immunodeficiency virus effectively produces infectious virions compared with a less pathogenic virus in cell culture.","authors":"Shoya Iwanami,&nbsp;Yusuke Kakizoe,&nbsp;Satoru Morita,&nbsp;Tomoyuki Miura,&nbsp;Shinji Nakaoka,&nbsp;Shingo Iwami","doi":"10.1186/s12976-017-0055-8","DOIUrl":"https://doi.org/10.1186/s12976-017-0055-8","url":null,"abstract":"<p><strong>Background: </strong>The host range of human immunodeficiency virus (HIV) is quite narrow. Therefore, analyzing HIV-1 pathogenesis in vivo has been limited owing to lack of appropriate animal model systems. To overcome this, chimeric simian and human immunodeficiency viruses (SHIVs) that encode HIV-1 Env and are infectious to macaques have been developed and used to investigate the pathogenicity of HIV-1 in vivo. So far, we have many SHIV strains that show different pathogenesis in macaque experiments. However, dynamic aspects of SHIV infection have not been well understood. To fully understand the dynamic properties of SHIVs, we focused on two representative strains-the highly pathogenic SHIV, SHIV-KS661, and the less pathogenic SHIV, SHIV-#64-and measured the time-course of experimental data in cell culture.</p><p><strong>Methods: </strong>We infected HSC-F with SHIV-KS661 and -#64 and measured the concentration of Nef-negative (target) and Nef-positive (infected) HSC-F cells, the total viral load, and the infectious viral load daily for 9 days. The experiments were repeated at two different multiplicities of infection, and a previously developed mathematical model incorporating the infectious and non-infectious viruses was fitted to the full dataset of each strain simultaneously to characterize the infection dynamics of these two strains.</p><p><strong>Results and conclusions: </strong>We quantified virological indices including virus burst sizes and basic reproduction number of both SHIV-KS661 and -#64. Comparing the burst size of total and infectious viruses (viral RNA copies and TCID<sub>50</sub>, respectively), we found that there was a statistically significant difference between the infectious virus burst size of SHIV-KS661 and -#64, while there was no significant difference between the total virus burst size. Furthermore, our analyses showed that the fraction of infectious virus among the produced SHIV-KS661 viruses, which is defined as the infectious viral load (TCID<sub>50</sub>/ml) divided by the total viral load (RNA copies/ml), is more than 10-fold higher than that of SHIV-#64 during overall infection (i.e., for 9 days). Taken together, we conclude that the highly pathogenic SHIV produces infectious virions more effectively than the less pathogenic SHIV in cell culture.</p>","PeriodicalId":51195,"journal":{"name":"Theoretical Biology and Medical Modelling","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2017-04-21","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1186/s12976-017-0055-8","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"34931672","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 14
Establishment of a new initial dose plan for vancomycin using the generalized linear mixed model. 应用广义线性混合模型建立万古霉素新的初始剂量计划。
Theoretical Biology and Medical Modelling Pub Date : 2017-04-08 DOI: 10.1186/s12976-017-0054-9
Yasuyuki Kourogi, Kenji Ogata, Norito Takamura, Jin Tokunaga, Nao Setoguchi, Mitsuhiro Kai, Emi Tanaka, Susumu Chiyotanda
{"title":"Establishment of a new initial dose plan for vancomycin using the generalized linear mixed model.","authors":"Yasuyuki Kourogi,&nbsp;Kenji Ogata,&nbsp;Norito Takamura,&nbsp;Jin Tokunaga,&nbsp;Nao Setoguchi,&nbsp;Mitsuhiro Kai,&nbsp;Emi Tanaka,&nbsp;Susumu Chiyotanda","doi":"10.1186/s12976-017-0054-9","DOIUrl":"https://doi.org/10.1186/s12976-017-0054-9","url":null,"abstract":"<p><strong>Background: </strong>When administering vancomycin hydrochloride (VCM), the initial dose is adjusted to ensure that the steady-state trough value (Css-trough) remains within the effective concentration range. However, the Css-trough (population mean method predicted value [PMMPV]) calculated using the population mean method (PMM) often deviate from the effective concentration range. In this study, we used the generalized linear mixed model (GLMM) for initial dose planning to create a model that accurately predicts Css-trough, and subsequently assessed its prediction accuracy.</p><p><strong>Methods: </strong>The study included 46 subjects whose trough values were measured after receiving VCM. We calculated the Css-trough (Bayesian estimate predicted value [BEPV]) from the Bayesian estimates of trough values. Using the patients' medical data, we created models that predict the BEPV and selected the model with minimum information criterion (GLMM best model). We then calculated the Css-trough (GLMMPV) from the GLMM best model and compared the BEPV correlation with GLMMPV and with PMMPV.</p><p><strong>Results: </strong>The GLMM best model was {[0.977 + (males: 0.029 or females: -0.081)] × PMMPV + 0.101 × BUN/adjusted SCr - 12.899 × SCr adjusted amount}. The coefficients of determination for BEPV/GLMMPV and BEPV/PMMPV were 0.623 and 0.513, respectively.</p><p><strong>Conclusion: </strong>We demonstrated that the GLMM best model was more accurate in predicting the Css-trough than the PMM.</p>","PeriodicalId":51195,"journal":{"name":"Theoretical Biology and Medical Modelling","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2017-04-08","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1186/s12976-017-0054-9","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"34895433","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 4
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