A gene expression atlas of the domestic pig.
A gene expression atlas of the domestic pig.
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DOI：
10.1186/1741-7007-10-90
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发表时间：
2012-11-15
期刊：
影响因子：
5.4
通讯作者：
Hume DA
中科院分区：
文献类型：
--
作者：
Freeman TC;Ivens A;Baillie JK;Beraldi D;Barnett MW;Dorward D;Downing A;Fairbairn L;Kapetanovic R;Raza S;Tomoiu A;Alberio R;Wu C;Su AI;Summers KM;Tuggle CK;Archibald AL;Hume DA
这项工作描述了对猪转录图谱的首次全基因组分析。为了全面覆盖已知的猪转录组，设计了一种新的猪用Affymetrix表达芯片。这种新芯片被用于生成来自62种组织/细胞类型的猪组织的全基因组表达图谱。对这些数据进行了网络相关性分析和聚类。
此处呈现的分析提供了猪转录组的详细功能聚类，其中转录本根据其表达模式进行分组，这样人们就可以从与其相关的基因以及其表达的位置推断一个未表征基因的功能。我们描述了组织图谱中存在的整体转录特征，在可能的情况下将这些特征归属于特定的细胞群体或通路。特别是，我们讨论了与胃肠道相关的表达特征，胃肠道是一个沿其长度在15个部位进行采样的器官，其在猪体内的生物学特性与人类相似。我们确定了定义特殊细胞区室和区域特异性消化功能的基因集。最后，我们对胃肠道中表达的转录因子进行了网络分析，并展示了它们如何细分为可能控制细胞胃肠道发育的功能组。
作为一种生理特性比小鼠更接近人类的重要家畜，我们为理解与哺乳动物组织和细胞已知生理相关的基因表达提供了一种重要的新资源。数据和分析可在网站http://biogps.org和http://www.macrophages.com/pig - atlas上获取。
This work describes the first genome-wide analysis of the transcriptional landscape of the pig. A new porcine Affymetrix expression array was designed in order to provide comprehensive coverage of the known pig transcriptome. The new array was used to generate a genome-wide expression atlas of pig tissues derived from 62 tissue/cell types. These data were subjected to network correlation analysis and clustering. The analysis presented here provides a detailed functional clustering of the pig transcriptome where transcripts are grouped according to their expression pattern, so one can infer the function of an uncharacterized gene from the company it keeps and the locations in which it is expressed. We describe the overall transcriptional signatures present in the tissue atlas, where possible assigning those signatures to specific cell populations or pathways. In particular, we discuss the expression signatures associated with the gastrointestinal tract, an organ that was sampled at 15 sites along its length and whose biology in the pig is similar to human. We identify sets of genes that define specialized cellular compartments and region-specific digestive functions. Finally, we performed a network analysis of the transcription factors expressed in the gastrointestinal tract and demonstrate how they sub-divide into functional groups that may control cellular gastrointestinal development. As an important livestock animal with a physiology that is more similar than mouse to man, we provide a major new resource for understanding gene expression with respect to the known physiology of mammalian tissues and cells. The data and analyses are available on the websites http://biogps.org and http://www.macrophages.com/pig-atlas.
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影响因子：
56.9
作者：
Carninci, P;Kasukawa, T;Hayashizaki, Y
通讯作者：
Hayashizaki, Y
影响因子：
3.5
作者：
David, CW;Norrman, J;Blum, JW
通讯作者：
Blum, JW
DOI：
10.1016/0005-2736(93)90357-6
发表时间：
1993-03-14
期刊：
BIOCHIMICA ET BIOPHYSICA ACTA
影响因子：
--
作者：
FREEMAN, TC;WOOD, IS;SHIRAZIBEECHEY, SP
通讯作者：
SHIRAZIBEECHEY, SP
影响因子：
3.4
作者：
Gyorgy, Andrea B.;Szemes, Marianna;Agoston, Denes V.
通讯作者：
Agoston, Denes V.
影响因子：
4.4
作者：
Hume, David A.;Summers, Kim M.;Freeman, Thomas C.
通讯作者：
Freeman, Thomas C.