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Genomicus：用于真核生物比较基因组学的五个基因组浏览器。

Genomicus: five genome browsers for comparative genomics in eukaryota.

机构信息

Ecole Normale Supérieure, Institut de Biologie de l'ENS, IBENS, Paris, France.

出版信息

Nucleic Acids Res. 2013 Jan;41(Database issue):D700-5. doi: 10.1093/nar/gks1156. Epub 2012 Nov 27.

DOI:10.1093/nar/gks1156
PMID:23193262
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC3531091/
Abstract

Genomicus (http://www.dyogen.ens.fr/genomicus/) is a database and an online tool that allows easy comparative genomic visualization in >150 eukaryote genomes. It provides a way to explore spatial information related to gene organization within and between genomes and temporal relationships related to gene and genome evolution. For the specific vertebrate phylum, it also provides access to ancestral gene order reconstructions and conserved non-coding elements information. We extended the Genomicus database originally dedicated to vertebrate to four new clades, including plants, non-vertebrate metazoa, protists and fungi. This visualization tool allows evolutionary phylogenomics analysis and exploration. Here, we describe the graphical modules of Genomicus and show how it is capable of revealing differential gene loss and gain, segmental or genome duplications and study the evolution of a locus through homology relationships.

摘要

Genomicus（http://www.dyogen.ens.fr/genomicus/）是一个数据库和在线工具，允许在>150 个真核生物基因组中轻松进行比较基因组可视化。它提供了一种探索与基因组织相关的空间信息的方法，包括在基因组内和基因组之间，以及与基因和基因组进化相关的时间关系。对于特定的脊椎动物门，它还提供了对祖先基因顺序重建和保守非编码元件信息的访问。我们将最初专门用于脊椎动物的 Genomicus 数据库扩展到了四个新的分支，包括植物、无脊椎后生动物、原生动物和真菌。这个可视化工具允许进行进化系统基因组学分析和探索。在这里，我们描述了 Genomicus 的图形模块，并展示了它如何能够揭示基因的差异丢失和获得、片段或基因组复制，并通过同源关系研究一个基因座的进化。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/150a/3531091/06b14492c6b4/gks1156f4p.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/150a/3531091/6be19aa130fe/gks1156f1p.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/150a/3531091/54d6a1d00c8d/gks1156f2p.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/150a/3531091/eecf45c48c90/gks1156f3p.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/150a/3531091/06b14492c6b4/gks1156f4p.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/150a/3531091/6be19aa130fe/gks1156f1p.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/150a/3531091/54d6a1d00c8d/gks1156f2p.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/150a/3531091/eecf45c48c90/gks1156f3p.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/150a/3531091/06b14492c6b4/gks1156f4p.jpg

相似文献

[1]
Genomicus: five genome browsers for comparative genomics in eukaryota.

Nucleic Acids Res. 2012-11-27

[2]
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[3]
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[4]
Genomicus: a database and a browser to study gene synteny in modern and ancestral genomes.

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[5]
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[6]
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[7]
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[8]
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[9]
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[10]
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[7]
Genomicus in 2022: comparative tools for thousands of genomes and reconstructed ancestors.

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[8]
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[9]
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[10]
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本文引用的文献

[1]
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Nucleic Acids Res. 2011-11-22

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Narcisse: a mirror view of conserved syntenies.

Nucleic Acids Res. 2008-1

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