Transcription profiling and proteomic profiling of mouse hippocampus

We have correlated transciptomics, proteomics and toponomics analyses of hippocampus tissue of inbred C57/BL6 mice to analyse the interrelationship of expressed genes and proteins at different levels of organization. We find that transcriptome and proteome levels of function are highly conserved between different mice, while the topological organization (the toponome) of protein clusters in synapses of the hippocampus is highly individual, with only few interindividual overlaps (0.15 %). In striking contrast, the overall spatial patterns of individual synaptic states, defined by protein clusters, have boundaries within a strict and non-individual spatial frame of the total synaptic network. The findings are the first to provide insight in the systems biology of gene expression on transcriptome, proteome and toponome levels of function in the same brain subregion. The approach may lay the ground for designing studies of neurodegeneration in mouse models and human brains. Experiment Overall Design: 4 biological replicates, all wild type本研究对近交系C57/BL6小鼠的海马组织开展转录组学（transcriptomics）、蛋白质组学（proteomics）与拓扑组学（toponomics）的关联分析，旨在解析不同组织层级中表达基因与蛋白质的相互关联关系。研究发现，不同小鼠间的转录组与蛋白质组功能水平高度保守；而海马突触内蛋白质簇的拓扑组织结构（即拓扑组）具有极强的个体特异性，个体间重叠比例仅为0.15%。与之形成鲜明对比的是，由蛋白质簇定义的个体突触状态的整体空间模式，在总突触网络严格且非个体特异性的空间框架内存在边界限制。本研究成果首次在同一脑亚区中，从转录组、蛋白质组与拓扑组功能层级揭示了基因表达的系统生物学特征。本研究方法可为小鼠模型与人类大脑的神经退行性疾病研究奠定基础。实验整体设计：设置4个生物学重复，所有样本均为野生型。