BiologicalNetworks--tools enabling the integration of multi-scale data for the host-pathogen studies.
BiologicalNetworks--tools enabling the integration of multi-scale data for the host-pathogen studies.
复制标题
DOI：
10.1186/1752-0509-5-7
复制
发表时间：
2011-01-14
影响因子：
--
通讯作者：
Baitaluk M
中科院分区：
文献类型：
--
作者：
Kozhenkov S;Sedova M;Dubinina Y;Gupta A;Ray A;Ponomarenko J;Baitaluk M
了解病原体感染宿主的免疫应答机制需要对全基因组数据进行多尺度分析。数据集成方法已被证明对模式生物的生物过程的研究是有用的，但它们系统地应用于宿主免疫系统对病原体和人类疾病的反应的研究仍处于初始阶段。为了在系统生物学水平上研究宿主-病原体相互作用，提出了对先前描述的BiologicalNetworks系统的扩展。所开发的方法和数据集成和查询工具允许简化和精简不同实验数据类型的集成过程，包括分子相互作用和系统发育分类、基因组序列和蛋白质结构信息、基因表达和病原体相关研究的毒力数据。这些数据可以从数据库和用户档案中整合出来，供公共和私人使用。所开发的系统可用于宿主-病原体相互作用的系统水平分析，包括在感染期间诱导/抑制的宿主分子途径、共表达基因和保守的转录因子结合位点。以前未知的与流感感染相关的基因被鉴定，并建议作为潜在的药物靶点进行进一步研究。开发的方法和数据可通过Java应用程序（来自http://www.biologicalnetworks.org上的BiologicalNetworks程序）和网络界面（http://flu.sdsc.edu）获得。
Understanding of immune response mechanisms of pathogen-infected host requires multi-scale analysis of genome-wide data. Data integration methods have proved useful to the study of biological processes in model organisms, but their systematic application to the study of host immune system response to a pathogen and human disease is still in the initial stage. To study host-pathogen interaction on the systems biology level, an extension to the previously described BiologicalNetworks system is proposed. The developed methods and data integration and querying tools allow simplifying and streamlining the process of integration of diverse experimental data types, including molecular interactions and phylogenetic classifications, genomic sequences and protein structure information, gene expression and virulence data for pathogen-related studies. The data can be integrated from the databases and user's files for both public and private use. The developed system can be used for the systems-level analysis of host-pathogen interactions, including host molecular pathways that are induced/repressed during the infections, co-expressed genes, and conserved transcription factor binding sites. Previously unknown to be associated with the influenza infection genes were identified and suggested for further investigation as potential drug targets. Developed methods and data are available through the Java application (from BiologicalNetworks program at http://www.biologicalnetworks.org) and web interface (at http://flu.sdsc.edu).
登录
查看更多内容
流感病毒数据库（IVDB）：流感病毒研究的综合信息资源和分析平台。
影响因子：
14.9
作者：
通讯作者：
--
影响因子：
3.5
作者：
Giegerich, R;Kurtz, S;Stoye, J
通讯作者：
Stoye, J
影响因子：
3
作者：
Baitaluk, M;Qian, XF;Gupta, A
通讯作者：
Gupta, A
影响因子：
4.4
作者：
Buss, Bryan F.;Shinde, Vivek M.;Uyeki, Timothy M.
通讯作者：
Uyeki, Timothy M.
影响因子：
14.9
作者：
Driscoll T;Dyer MD;Murali TM;Sobral BW
通讯作者：
Sobral BW