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. 2023 Aug 19:2023:10.17912/micropub.biology.000906.
doi: 10.17912/micropub.biology.000906. eCollection 2023.

Exploring Genetic Information with Ease: The Linkout Plugin for JBrowse 2

Chi-Hsien Chang  1 , Szu-Ping Chen  2 , Monica Poelchau  3 , Christopher Childers  3
Affiliations

Exploring Genetic Information with Ease: The Linkout Plugin for JBrowse 2

Chi-Hsien Chang et al. MicroPubl Biol. .

Abstract

JBrowse 2 is a next-generation genome browser that can be run as a web or desktop application. We describe a new plugin, the Linkout Plugin, that enables users to link features to external databases based on their IDs and the remote URLs on JBrowse 2 desktop or web. As a result, genome analysis time and effort are reduced, enabling researchers to gain insights more quickly. The Linkout Plugin fills a common need scientists have: looking for more information on a gene. Overall, the Linkout Plugin is a valuable and practical addition to the JBrowse functionality.

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Conflict of interest statement

The authors declare that there are no conflicts of interest present.

Figures

Figure 1. The Linkout Plugin for JBrowse 2
Figure 1. The Linkout Plugin for JBrowse 2
The Linkout Plugin is able to automatically add linkouts to the National Center for Biotechnology Information (NCBI) feature page if a feature has NCBI IDs on the JBrowse 2 desktop or web. Users can click the “GeneID:126871197” or “Genbank:XR_007691556.1” cross-references on the right-hand side of the dbxref section.
See this image and copyright information in PMC

References

    1. Diesh Colin, Stevens Garrett J, Xie Peter, De Jesus Martinez Teresa, Hershberg Elliot A., Leung Angel, Guo Emma, Dider Shihab, Zhang Junjun, Bridge Caroline, Hogue Gregory, Duncan Andrew, Morgan Matthew, Flores Tia, Bimber Benjamin N., Haw Robin, Cain Scott, Buels Robert M., Stein Lincoln D., Holmes Ian H. JBrowse 2: a modular genome browser with views of synteny and structural variation. Genome Biology. 2023 Apr 17;24(1) doi: 10.1186/s13059-023-02914-z. - DOI - PMC - PubMed

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