Further ongoing manual curation based on published data as well as database mining for selected genes allowed the more refined annotation of functions, which, in turn, allowed for annotation of new pathways and fine-tuning of previously defined pathways to more L. monocytogenes-specific pathways.
We show that the genomewide-expression-maps generated using images from embryos in refined stages illuminate global gene activities and changes much better, and more refined stage annotations improve our ability to better interpret results when expression pattern matches are discovered between genes.
Having a subcategory localization detection allows PSORTb to give these types of proteins a more refined localization annotation, for example: 'extracellular T3SS (Type III secretion apparatus)' rather than just the misleading classification of 'extracellular'extracellular
We used the Arabidopsis protein annotation to define homologous genes in U. gibba because these annotations are more refined than those from other species.
For a more refined control of novel isoforms, or for organisms with poor transcript annotations, users are suggested to perform novel transcript assembly using tools like Cufflinks [22] and then load the resulting gene and transcript annotations (GTF) into PrimerSeq.
However, I find that some of the already existing approaches provide a representation of features that I (subjectively) find graphically more refined and that go beyond simple boxes, circles, and triangles to represent sequence annotations.
Further, transcriptome information from 30 developmental stages (Graveley et al. 2011), and extended functional annotation and mutant phenotypic information are currently available allowing for a more refined characterization.
Therefore, adopting a more specific disease focus, in combination with dedicated disease ontologies, will better empower the selection of comparable studies with refined annotations to address the research question at hand.
