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Iccare网络服务器：整合动植物物种序列与图谱信息的尝试。

The Iccare web server: an attempt to merge sequence and mapping information for plant and animal species.

作者信息

Muller Cédric, Denis Mathieu, Gentzbittel Laurent, Faraut Thomas

机构信息

INP-ENSAT, Laboratoire de biotechnologies et d'amélioration des plantes, Castanet Tolosan 31326, France.

出版信息

Nucleic Acids Res. 2004 Jul 1;32(Web Server issue):W429-34. doi: 10.1093/nar/gkh460.

DOI:10.1093/nar/gkh460
PMID:15215424
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC441598/
Abstract

The Iccare web server, http://genopole.toulouse.inra.fr/bioinfo/Iccare, provides a simple yet efficient tool for crude EST (expressed sequence tag) annotation specifically dedicated to comparative mapping approaches. Iccare uses all the EST and mRNA sequences from public databases for an organism of interest (query species) and compares them to all the transcripts of one reference organism (Homo sapiens or Arabidopsis thaliana). The results are displayed according to the location of the genes on the chromosomes of the reference organism. Gene structure information and sequence similarities are combined in a graphical representation in order to pinpoint the nature of the transcript query sequence. The user can subsequently design primers or probes for the purpose of physical or genetic mapping. In addition to the query organisms already available in Iccare, users can perform a tailor-made search with their own sequences against the animal or plant reference organism genes.

摘要

Iccare网络服务器（http://genopole.toulouse.inra.fr/bioinfo/Iccare）提供了一个简单而高效的工具，用于对原始EST（表达序列标签）进行注释，该工具专门用于比较图谱绘制方法。Iccare使用来自公共数据库的感兴趣生物体（查询物种）的所有EST和mRNA序列，并将它们与一种参考生物体（智人或拟南芥）的所有转录本进行比较。结果根据参考生物体染色体上基因的位置进行显示。基因结构信息和序列相似性以图形表示的方式相结合，以便确定转录本查询序列的性质。用户随后可以为物理或遗传图谱绘制目的设计引物或探针。除了Iccare中已有的查询生物体之外，用户还可以使用自己的序列针对动物或植物参考生物体基因进行定制搜索。

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本文引用的文献

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Mapping of 195 genes in cattle and updated comparative map with man, mouse, rat and pig.牛中195个基因的图谱绘制以及与人类、小鼠、大鼠和猪的更新比较图谱。
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