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Computer Simulation of Epstein Barr Virus Infection

EB 病毒感染的计算机模拟

基本信息

批准号：
7541421
负责人：
David A. Thorley-Lawson
金额：
$ 45.26万
依托单位：
TUFTS UNIVERSITY BOSTON
依托单位国家：
美国
项目类别：
财政年份：
2005
资助国家：
美国
起止时间：
2005-01-01 至 2010-12-31
项目状态：
已结题

来源：
https://reporter.nih.gov/project-details/7541421
关键词：
Ablation Acute Address Adenoidal structure Adult Algorithms Anatomy Animal Model B-Lymphocytes Biology Blood CD8-Positive T-Lymphocytes CD8B1 gene Cell physiology Cells Communication Computer Simulation Data Dose Epstein-Barr Virus Infections Equation Equilibrium Generations Goals Herpesviridae Human Human Herpesvirus 4 Immune Immunologic Techniques Immunologics Immunosuppression Infection Infectious Mononucleosis Intervention Kinetics Linux Lymphocyte Malignant Neoplasms Measurement Measures Memory B-Lymphocyte Modeling Organ Output Pattern Plasma Cells Population Population Sizes Production Rest Running Saliva Supercomputing System T-Lymphocyte Target Populations Technology Testing Time Tissues Tonsil Transplant Recipients Vaccination Vaccines Variant Viral Viral Antibodies Virus Virus Shedding Wireless Technology base experience immunosuppressed latent gene expression latent persistent infection mathematical model neutralizing antibody pathogen response simulation trafficking

项目摘要

DESCRIPTION (provided by applicant): Epstein-Barr vires persistently infects >95% of the adult human population. It causes infectious mononucleosis and is associated with several important human cancers. Considerable progress has been made recently in understanding how EBV establishes and maintains persistent infection. It is apparent that EBV uses various combinations of latent gene expression patterns to manipulate the biology of normal B lymphocytes. This allows EBV to establish latent persistent infection in resting memory B cells in the blood and replicate in plasma cells in the lymphoepithelium of Waldeyer's ring (tonsils and adenoids). However, these studies have all been static and an understanding of the dynamics of the infection is lacking. In the absence of a suitable animal model, we propose to develop a new generation of computer simulation. The application of supercomputing on distributed clusters of processors will allow us to develop an unprecedented level of sophistication and complexity. We will employ an agent-based approach, which makes it possible to represent the actual anatomy of the relevant tissues and organs and the dynamic changes that occur over time and space. These features are not possible with traditional mathematical models based on ordinary differential equations. A simulation involving approximately 108 agents is within reach and should produce realistic results, based on previous experience with similar simulations of traffic and wireless communication systems. We will use sensitive PCR and immunological techniques to accurately measure levels of virus shedding, virus infected cells, EBV specific CD4 and CD8 cells and neutralizing antibody as acute infection resolves into persistent infection. The data will then be used to inform the computer simulation. This approach will allow us to define the infection parameters necessary to predict the observed kinetics of infection. Ultimately, the simulation will be used to test the effects of perturbations such as lowering the numbers of T cells (immunosuppression) eliminating infectious virus (anti-viral and/or vaccines) and to ask if complete clearance (i.e. cure) of the virus is realistic or even possible.

描述（由申请人提供）：爱泼斯坦-巴尔病毒持续感染>95%的成年人群。它引起传染性单核细胞增多症，并与几种重要的人类癌症有关。最近在理解EBV如何建立和维持持续感染方面取得了相当大的进展。很明显，EB病毒使用各种潜在基因表达模式的组合来操纵正常B淋巴细胞的生物学。这允许EBV在血液中的静息记忆B细胞中建立潜伏的持续感染，并在Waldeyer环（扁桃体和腺样体）的淋巴上皮中的浆细胞中复制。然而，这些研究都是静态的，缺乏对感染动力学的了解。在缺乏合适的动物模型的情况下，我们建议开发新一代的计算机模拟。超级计算在分布式处理器集群上的应用将使我们能够发展出前所未有的先进性和复杂性。我们将采用基于代理的方法，这使得有可能代表相关组织和器官的实际解剖结构以及随时间和空间发生的动态变化。这些特点是不可能与传统的数学模型的基础上常微分方程。根据以前对交通和无线通信系统进行类似模拟的经验，涉及大约108个代理的模拟是可以实现的，应该会产生现实的结果。我们将使用灵敏的PCR和免疫学技术，准确测量急性感染转化为持续感染时的病毒脱落、病毒感染细胞、EBV特异性CD 4和CD 8细胞以及中和抗体水平。这些数据将被用于计算机模拟。这种方法将使我们能够定义必要的感染参数来预测观察到的感染动力学。最终，模拟将用于测试扰动的影响，例如降低消除感染性病毒（抗病毒和/或疫苗）的T细胞（免疫抑制）的数量，并询问病毒的完全清除（即治愈）是否现实甚至可能。