ApiEST-DB: analyzing clustered EST data of the apicomplexan parasites
ApiEST-DB: analyzing clustered EST data of the apicomplexan parasites
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DOI：
10.1093/nar/gkh112
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发表时间：
2004-01-01
影响因子：
14.9
通讯作者：
Roos, DS
中科院分区：
文献类型：
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作者：
Li, L;Crabtree, J;Roos, DS
ApiEST-DB (http://www.cbil.upenn.edu/paradbs-servlet/)provides)集成了对顶复合体门原生动物寄生虫的公开EST数据的访问。该数据库目前包含了来自几种具有临床和/或兽医意义的寄生虫的近10万份est，包括柔弱艾美耳虫、犬新孢子虫、恶性疟原虫、神经肌囊虫和刚地弓形虫。为了便于分析这些数据，EST序列被聚类和组装以形成每个生物体的一致序列，然后通过对蛋白质和结构域数据库的相似性搜索对这些序列进行自动注释。底层的关系数据库基础设施，基因组学统一模式（GUS），可以实现复杂的基于生物学的查询，促进基因模型的验证，替代剪接的鉴定，单核苷酸多态性的检测，阶段特异性基因的鉴定以及系统发育保守和系统发育受限序列的识别。
ApiEST-DB (http://www.cbil.upenn.edu/paradbs-servlet/)provides integrated access to publicly available EST data from protozoan parasites in the phylum Apicomplexa. The database currently incorporates a total of nearly 100 000 ESTs from several parasite species of clinical and/or veterinary interest, including Eimeria tenella, Neospora caninum, Plasmodium falciparum, Sarcocystis neurona and Toxoplasma gondii. To facilitate analysis of these data, EST sequences were clustered and assembled to form consensus sequences for each organism, and these assemblies were then subjected to automated annotation via similarity searches against protein and domain databases. The underlying relational database infrastructure, Genomics Unified Schema (GUS), enables complex biologically based queries, facilitating validation of gene models, identification of alternative splicing, detection of single nucleotide polymorphisms, identification of stage-specific genes and recognition of phylogenetically conserved and phylogenetically restricted sequences.