ASPIC: a web resource for alternative splicing prediction and transcript isoforms characterization.
ASPIC: a web resource for alternative splicing prediction and transcript isoforms characterization.
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DOI：
10.1093/nar/gkl324
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发表时间：
2006-07-01
影响因子：
14.9
通讯作者：
Pesole G
中科院分区：
文献类型：
--
作者：
Castrignanò T;Rizzi R;Talamo IG;De Meo PD;Anselmo A;Bonizzoni P;Pesole G
选择性剪接（AS）是一种促进多细胞生物转录组和蛋白质组复杂性扩展的主要机制。单个基因位点可以产生多个mrna和蛋白质亚型，显示出主要和细微的结构变化，这是真核生物基因组编码能力优化的一个特别通用的工具。庞大且不断增加的基因组和转录本序列为基因AS模式的计算检测提供了重要的信息源。然而，目前的基因组标注管道并没有充分利用这些信息进行基因标注。我们在此提供了一个web资源，实现了我们之前开发的ASPIC算法，该算法基于对来自各种物种的可用转录本和基因组数据的比较分析，用于调查用户提交基因的AS。ASPIC网站资源提供了所有全长mRNA同种异构体的剪接模式的图形和表格视图，这些同种异构体与正在研究的基因的检测到的剪接位点兼容，以及相关的结构和功能注释。ASPIC web资源（可在-）与Ensembl和Unigene数据库动态连接，并且还实现了上传功能。
Alternative splicing (AS) is now emerging as a major mechanism contributing to the expansion of the transcriptome and proteome complexity of multicellular organisms. The fact that a single gene locus may give rise to multiple mRNAs and protein isoforms, showing both major and subtle structural variations, is an exceptionally versatile tool in the optimization of the coding capacity of the eukaryotic genome. The huge and continuously increasing number of genome and transcript sequences provides an essential information source for the computational detection of genes AS pattern. However, much of this information is not optimally or comprehensively used in gene annotation by current genome annotation pipelines. We present here a web resource implementing the ASPIC algorithm which we developed previously for the investigation of AS of user submitted genes, based on comparative analysis of available transcript and genome data from a variety of species. The ASPIC web resource provides graphical and tabular views of the splicing patterns of all full-length mRNA isoforms compatible with the detected splice sites of genes under investigation as well as relevant structural and functional annotation. The ASPIC web resource—available at —is dynamically interconnected with the Ensembl and Unigene databases and also implements an upload facility.
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影响因子：
14.9
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通讯作者：
Xing, Y
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