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Analyzing a genome, for a generic gene, which functional annotations (e.g from Gene Ontology) can help understanding its meaning/function or, at least, provide helpful informations?

  • Annotations of that gene
  • Annotations of orthologous genes (?)
  • Annotations of paralogous genes (?)
  • Co-expressed genes (given a biological condition) (?)
  • What else?

Thank you.

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up vote 4 down vote accepted
  • I'd add genetic effects of the gene and its orthologs in that own host. Knockouts and overexpression are powerful in uncovering function.
  • In terms of baseline or normal expression, I would add tissue, developmental or differentiation time points, and conditions which stimulate or repress expression.
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