The TIGR Gene Indices: clustering and assembling EST and known genes and integration with eukaryotic genomes

被引：145

作者：

Lee, Y ^{[1
]}

Tsai, J ^{[1
]}

Sunkara, S ^{[1
]}

Karamycheva, S ^{[1
]}

Pertea, G ^{[1
]}

Sultana, R ^{[1
]}

Antonescu, V ^{[1
]}

Chan, A ^{[1
]}

Cheung, F ^{[1
]}

Quackenbush, J ^{[1
]}

机构：

[1] Inst Genom Res, Rockville, MD 20850 USA

来源：

NUCLEIC ACIDS RESEARCH | 2005年 / 33卷

基金：

美国国家科学基金会;

关键词：

D O I：

10.1093/nar/gki064

中图分类号：

Q5 [生物化学]; Q7 [分子生物学];

学科分类号：

071010 ; 081704 ;

摘要：

Although the list of completed genome sequencing projects has expanded rapidly, sequencing and analysis of expressed sequence tags (ESTs) remain a primary tool for discovery of novel genes in many eukaryotes and a key element in genome annotation. The TIGR Gene Indices (http://www.tigr.org/tdb/tgi) are a collection of 77 species-specific databases that use a highly refined protocol to analyze gene and EST sequences in an attempt to identify and characterize expressed transcripts and to present them on the Web in a user-friendly, consistent fashion. A Gene Index database is constructed for each selected organism by first clustering, then assembling EST and annotated cDNA and gene sequences from GenBank. This process produces a set of unique, high-fidelity virtual transcripts, or tentative consensus (TC) sequences. The TC sequences can be used to provide putative genes with functional annotation, to link the transcripts to genetic and physical maps, to provide links to orthologous and paralogous genes, and as a resource for comparative and functional genomic analysis.

引用

页码：D71 / D74

页数：4