BactoGeNIE: a large-scale comparative genome visualization for big displays - BMC Bioinformatics
bmcbioinformatics.biomedcentral.com/articles/10.1186/1471-2105-16-S11-S6
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By presenting neighborhoods around ortholog clusters of interest, the researchers believed they could identify potential errors in data generation and form hypotheses that may aid in fixing such errors.
Since bacterial genomes often cluster genes involved in similar functions within the genome, changes in neighbors around a gene of interest may signal changes in function, such as an alteration in a biochemical pathway.
The strength of the hypothesis depends on the consistency of a feature across many neighborhoods.
In addition, she identified a set of common breaks in assembly as well as gaps, which point to potential errors in assembly and annotation in the raw data, as described in the Task Analysis section.
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