Cross-referencing eukaryotic genomes: TIGR orthologous gene alignments (TOGA)
Cross-referencing eukaryotic genomes: TIGR orthologous gene alignments (TOGA)
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DOI：
10.1101/gr.212002
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发表时间：
2002-03-01
期刊：
影响因子：
7
通讯作者：
Quackenbush, J
中科院分区：
文献类型：
--
作者：
Lee, Y;Sultana, R;Quackenbush, J
比较基因组学有望迅速加速人类重要生物基因的鉴定和功能分类。我们开发了TIGR Orthopathy基因比对（TOGA; http://www.tigr.or，-/tdb/to，-a/toga.shtml）数据库，以提供完全和部分测序的真核转录序列之间的交叉参考。从组装的表达序列标签（EST）和包含28个TIGR基因索引的基因序列开始，我们使用高严格性成对序列搜索和自反、传递闭合过程来关联序列特异性最佳命中，产生32，652个试验性直系同源物组（TOG）。这使我们能够确定已知基因的假定直系同源物和旁系同源物，以及那些只存在于未表征的EST中的基因，并提供其他信息的链接，包括基因组序列和映射数据。TOGA为真核生物基因功能的研究提供了一个重要的新资源。此外，对最广泛代表的序列的分析可以开始提供对真核生物过程的洞察。
Comparative genomics promises to rapidly accelerate the identification and functional classification of biologically important human genes. We developed the TIGR Orthologous Gene Alignment (TOGA; http://www.tigr.or,-/tdb/to,-a/toga.shtml) database to provide a cross-reference between fully and partially sequenced eukaryotic transcribed sequences. Starting with the assembled expressed Sequence tag (EST) and gene sequences that comprise the 28 TIGR Gene Indices, we used high-stringency pair-wise sequence searches and a reflexive, transitive closure process to associate sequence-specific best hits, generating 32,652 tentative ortholog groups (TOGs). This has allowed us to identify putative orthologs and paralogs for known genes, as well as those that exist only as uncharacterized ESTs and to provide links to additional information including genome sequence and mapping data. TOGA provides an important new resource for the analysis of gene function in eukaryotes. In addition, an analysis of the most widely represented sequences can begin to provide insight into eukaryotic biological processes.