A sequence comparison and gene expression data integration add-on for the Pathway Tools software | Zendy

Peter M. Krempl | Zendy; Juergen Mairhofer | Zendy; Gerald Striedner | Zendy; Gerhard Thallinger | Zendy

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A sequence comparison and gene expression data integration add-on for the Pathway Tools software

Author(s) -

Peter M. Krempl,

Juergen Mairhofer,

Gerald Striedner,

Gerhard Thallinger

Publication year - 2012

Publication title -

bioinformatics

Language(s) - English

Resource type - Journals

SCImago Journal Rank - 3.599

H-Index - 390

eISSN - 1367-4811

pISSN - 1367-4803

DOI - 10.1093/bioinformatics/bts431

Subject(s) - plug in , computer science , documentation , software , graphical user interface , interface (matter) , computational biology , sequence (biology) , visualization , genome , data mining , gene , programming language , biology , genetics , operating system , bubble , maximum bubble pressure method

We present a plug-in for Pathway Tools, an integrated systems biology software to create, maintain and query Pathway/Genome Databases. Fully integrated into the graphical user interface and menu, this plug-in extends the application's functionality by the ability to create multiple sequence alignments, systematically annotate insertion sequence (IS) elements and analyse their activity by cross-species comparison tools. Microarray probes can be automatically mapped to target genes, and expression data obtained with these arrays can be transformed into input formats needed to visualize them in the various omics viewers of Pathway Tools. The plug-in API itself allows developers to integrate their own functions into the Pathway Tools menu.

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