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. 2006 Jul 1;34(Web Server issue):W293-7.
doi: 10.1093/nar/gkl031.

WEGO: a web tool for plotting GO annotations

Jia Ye  1 , Lin Fang, Hongkun Zheng, Yong Zhang, Jie Chen, Zengjin Zhang, Jing Wang, Shengting Li, Ruiqiang Li, Lars Bolund, Jun Wang
Affiliations

WEGO: a web tool for plotting GO annotations

Jia Ye et al. Nucleic Acids Res. .

Abstract

Unified, structured vocabularies and classifications freely provided by the Gene Ontology (GO) Consortium are widely accepted in most of the large scale gene annotation projects. Consequently, many tools have been created for use with the GO ontologies. WEGO (Web Gene Ontology Annotation Plot) is a simple but useful tool for visualizing, comparing and plotting GO annotation results. Different from other commercial software for creating chart, WEGO is designed to deal with the directed acyclic graph structure of GO to facilitate histogram creation of GO annotation results. WEGO has been used widely in many important biological research projects, such as the rice genome project and the silkworm genome project. It has become one of the daily tools for downstream gene annotation analysis, especially when performing comparative genomics tasks. WEGO, along with the two other tools, namely External to GO Query and GO Archive Query, are freely available for all users at http://wego.genomics.org.cn. There are two available mirror sites at http://wego2.genomics.org.cn and http://wego.genomics.com.cn. Any suggestions are welcome at wego@genomics.org.cn.

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Figures

Figure 1
Figure 1
WEGO interfaces. (A–C) Shows a screenshot montage of the WEGO interface of the three steps of the WEGO procedure: annotation results uploading, hierarchical GO tree editing, output setting. As an example, (D) is a sample figure from the analysis of silkworm draft sequences to show how WEGO can help analyze and compare the annotation results. In this histogram, EST-confirmed genes in silk gland are compared with 11 other libraries. Significant differences are obvious in several categories.
Figure 2
Figure 2
External to GO Query. Screen capture from the External to GO Query, which attempts to make translations between other categories and GO. Users could query both GO ID and entries of external systems by External to GO Query. The complex relationships among the external catalogs are not in the consideration of External to GO Query, so if the entry of external database is queried, only the associated GO terms will be returned.
Figure 3
Figure 3
GO Archive Query. GO Archive Query provides the interface that allows users to query GO ID in the format of GO:0001955, 0001955 or just 1955. All the versions of GO repositories containing the GO ID will be presented. It is helpful for users choosing the correct version or at least a similar version of GO repository to use.
See this image and copyright information in PMC

References

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