Similarities and differences in genome-wide expression data of six organisms.
Similarities and differences in genome-wide expression data of six organisms.
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DOI：
10.1371/journal.pbio.0020009
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发表时间：
2004-01
期刊：
影响因子：
9.8
通讯作者：
Barkai N
中科院分区：
文献类型：
--
作者：
Bergmann S;Ihmels J;Barkai N
比较不同生物体的基因组特性在生物学和进化原理的研究中具有根本的重要性。虽然生物体之间的差异往往归因于差异基因表达，全基因组的比较分析，迄今已主要基于基因组序列信息。我们提出了一个比较研究的大数据集的表达谱从六个进化上遥远的生物：S。酿酒酵母C. elegans、E. coli、A. thaliana，D. melanogaster和H.智人我们使用基因组序列信息来连接这些数据，并比较转录程序的全局和模块化特性。连接基因的表达谱是相似的，我们发现，对于所有的生物体的连接分布遵循幂律，高度连接的基因往往是必不可少的和保守的，和表达程序是高度模块化的。我们揭示了模块化的结构分解成coexpressed模块的每一组表达数据。功能相关的基因组经常在多种生物体中共表达。然而，它们对转录程序的相对重要性及其调节关系在生物体中各不相同。我们的研究结果表明，结合序列和表达数据，以改善功能基因注释和扩大我们的理解基因表达和多样性如何演变的潜力。对来自细菌、酵母、蠕虫、苍蝇、杂草和人类的序列和基因表达数据的比较分析暗示了提取生物学和进化原理的潜力
Comparing genomic properties of different organisms is of fundamental importance in the study of biological and evolutionary principles. Although differences among organisms are often attributed to differential gene expression, genome-wide comparative analysis thus far has been based primarily on genomic sequence information. We present a comparative study of large datasets of expression profiles from six evolutionarily distant organisms: S. cerevisiae, C. elegans, E. coli, A. thaliana, D. melanogaster, and H. sapiens. We use genomic sequence information to connect these data and compare global and modular properties of the transcription programs. Linking genes whose expression profiles are similar, we find that for all organisms the connectivity distribution follows a power-law, highly connected genes tend to be essential and conserved, and the expression program is highly modular. We reveal the modular structure by decomposing each set of expression data into coexpressed modules. Functionally related sets of genes are frequently coexpressed in multiple organisms. Yet their relative importance to the transcription program and their regulatory relationships vary among organisms. Our results demonstrate the potential of combining sequence and expression data for improving functional gene annotation and expanding our understanding of how gene expression and diversity evolved. Comparative analysis of sequence and gene expression data from bacteria, yeast, worms, flies, weeds, and humans hints at the potential to extract biological and evolutionary principles
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影响因子：
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作者：
Dorogovtsev, SN;Goltsev, AV;Mendes, JFF
通讯作者：
Mendes, JFF
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Jeong, H;Mason, SP;Oltvai, ZN
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White, KP
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作者：
Ihmels, J;Friedlander, G;Barkai, N
通讯作者：
Barkai, N