SUBA3: a database for integrating experimentation and prediction to define the SUBcellular location of proteins in Arabidopsis.
SUBA3: a database for integrating experimentation and prediction to define the SUBcellular location of proteins in Arabidopsis.
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DOI：
10.1093/nar/gks1151
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发表时间：
2013-01
影响因子：
14.9
通讯作者：
Millar HA
中科院分区：
文献类型：
--
作者：
Tanz SK;Castleden I;Hooper CM;Vacher M;Small I;Millar HA
拟南芥蛋白质的亚细胞定位数据库（SUBA 3，http://suba.plantenergy.uwa.edu.au）结合了大规模亚细胞蛋白质组学，荧光蛋白可视化和蛋白质-蛋白质相互作用（PPI）数据集的手动文献管理，以及来自22个预测程序的亚细胞靶向调用。自2007年首次发布以来，已增加了14500多个新的实验地点。总的来说，包括近650 000个新的调用35 388个非冗余拟南芥蛋白质的亚细胞定位（几乎六倍的信息在以前的SUBA版本）。重新设计的界面使SUBA 3网站比早期版本更直观、更易于使用，并提供了在细胞区室化背景下搜索PPI的强大选项。SUBA 3还包括参考细胞器数据集的详细定位信息，并结合了许多蛋白质的绿色荧光蛋白（GFP）图像。为了尽可能客观地确定特定蛋白质的位置，我们开发了SUBAcon，这是一种贝叶斯方法，它结合了实验定位和靶向预测数据，以最好地估计蛋白质在细胞中的位置。提供了每种蛋白质的亚细胞位置的概率，并显示为SUBA 3中植物细胞的象形热图。
The subcellular location database for Arabidopsis proteins (SUBA3, http://suba.plantenergy.uwa.edu.au) combines manual literature curation of large-scale subcellular proteomics, fluorescent protein visualization and protein–protein interaction (PPI) datasets with subcellular targeting calls from 22 prediction programs. More than 14 500 new experimental locations have been added since its first release in 2007. Overall, nearly 650 000 new calls of subcellular location for 35 388 non-redundant Arabidopsis proteins are included (almost six times the information in the previous SUBA version). A re-designed interface makes the SUBA3 site more intuitive and easier to use than earlier versions and provides powerful options to search for PPIs within the context of cell compartmentation. SUBA3 also includes detailed localization information for reference organelle datasets and incorporates green fluorescent protein (GFP) images for many proteins. To determine as objectively as possible where a particular protein is located, we have developed SUBAcon, a Bayesian approach that incorporates experimental localization and targeting prediction data to best estimate a protein’s location in the cell. The probabilities of subcellular location for each protein are provided and displayed as a pictographic heat map of a plant cell in SUBA3.
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影响因子：
14.9
作者：
Heazlewood, Joshua L.;Verboom, Robert E.;Millar, A. Harvey
通讯作者：
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作者：
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