系统生物学
蛋白质组学
计算生物学
管道(软件)
生物网络
计算机科学
生物
模拟生物系统
基因组学
生物信息学
数据科学
基因组
基因
遗传学
程序设计语言
作者
Sangchul Rho,Sungyong You,Yongsoo Kim,Daehee Hwang
标识
DOI:10.5483/bmbrep.2008.41.3.184
摘要
Living organisms are comprised of various systems at different levels, i.e., organs, tissues, and cells. Each system carries out its diverse functions in response to environmental and genetic perturbations, by utilizing biological networks, in which nodal components, such as, DNA, mRNAs, proteins, and metabolites, closely interact with each other. Systems biology investigates such systems by producing comprehensive global data that represent different levels of biological information, i.e., at the DNA, mRNA, protein, or metabolite levels, and by integrating this data into network models that generate coherent hypotheses for given biological situations. This review presents a systems biology framework, called the 'Integrative Proteomics Data Analysis Pipeline' (IPDAP), which generates mechanistic hypotheses from network models reconstructed by integrating diverse types of proteomic data generated by mass spectrometry-based proteomic analyses. The devised framework includes a serial set of computational and network analysis tools. Here, we demonstrate its functionalities by applying these tools to several conceptual examples.
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