Gene2EST:: a BLAST2 server for searching expressed sequence tag (EST) databases with eukaryotic gene-sized queries

被引：24

作者：

Gemünd, C ^{[1
]}

Ramu, C ^{[1
]}

Altenberg-Greulich, B ^{[1
]}

Gibson, TJ ^{[1
]}

机构：

[1] European Mol Biol Lab, D-69012 Heidelberg, Germany

来源：

NUCLEIC ACIDS RESEARCH | 2001年 / 29卷 / 06期

关键词：

D O I：

10.1093/nar/29.6.1272

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：

Expressed sequence tags (ESTs) are randomly sequenced cDNA clones, Currently, nearly 3 million human and 2 million mouse ESTs provide valuable resources that enable researchers to investigate the products of gene expression, The EST databases have proven to be useful tools for detecting homologous genes, for exon mapping, revealing differential splicing, etc, With the increasing availability of large amounts of poorly characterised eukaryotic (notably human) genomic sequence, ESTs have now become a vital tool for gene identification, sometimes yielding the only unambiguous evidence for the existence of a gene expression product, However, BLAST-based Web servers available to the general user have not kept pace with these developments and do not provide appropriate tools for querying EST databases with large highly spliced genes, often spanning 50 000-100 000 bases or more. Here we describe Gene2EST (http://woody.embl-heidelberg.de/ gene2est/), a-server that brings together a set of tools enabling efficient retrieval of ESTs matching large DMA queries and their subsequent analysis, Repeat-Masker is used to mask dispersed repetitive sequences (such as Alu elements) in the query, BLAST2 for-searching EST databases and Artemis for graphical display of the findings. Gene2EST combines these components into a Web resource targeted at the researcher who wishes to study one or a few genes to a high level of detail.

引用

页码：1272 / 1277

页数：6

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