Abstract
BackgroundThe growing whole genome sequence databases necessitate the development of user-friendly software tools to mine these data. Web-based tools are particularly useful to wet-bench biologists as they enable platform-independent analysis of sequence data, without having to perform complex programming tasks and software compiling.FindingsGeneOrder4.0 is a web-based "on-the-fly" synteny and gene order analysis tool for comparative bacterial genomics (ca. 8 Mb). It enables the visualization of synteny by plotting protein similarity scores between two genomes and it also provides visual annotation of "hypothetical" proteins from older archived genomes based on more recent annotations.ConclusionsThe web-based software tool GeneOrder4.0 is a user-friendly application that has been updated to allow the rapid analysis of synteny and gene order in large bacterial genomes. It is developed with the wet-bench researcher in mind.
Highlights
The growing whole genome sequence databases necessitate the development of user-friendly software tools to mine these data
The web-based software tool GeneOrder4.0 is a user-friendly application that has been updated to allow the rapid analysis of synteny and gene order in large bacterial genomes
Software tools have been developed for the analysis of gene order and synteny, which are important because they can be used to understand prokaryotic relationships and the evolution of their genomes [2], as well as to aid in gene function annotation [3], and to parse functional coupling prediction between genes in gene clusters [4]
Summary
The growing whole genome sequence databases necessitate the development of user-friendly software tools to mine these data. Conclusions: The web-based software tool GeneOrder4.0 is a user-friendly application that has been updated to allow the rapid analysis of synteny and gene order in large bacterial genomes. GeneOrder4.0 is a user-friendly, web-based tool that has been updated for the analysis of gene order and synteny between two large bacterial genomes.
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