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helpful annotation examples

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Unacceptable GO annotations

For CACAO I students, here are some examples of some GO annotations that I would mark as unacceptable

  • I would mark this annotation wrong because the authors aren't characterizing the PROTEIN in this figure. The figure is a Northern blot measuring a change in the mRNA levels and doesn't characterize anything specifically about the PROTEIN.
  • Here's one I would mark wrong for having an qualifier that is unnecessary. We already assume a protein contributes_to a bioloigcal process, so there is NO NEED for a qualifier on this annotation.

Acceptable GO annotations

  • If you see a paper that looks like it is about an enzyme (i.e. ends in -ase), see if the authors assay or give the activity or specific activity or kinetics or enzyme kinetics for the protein. It might look like this in a paper:
  • Here is an EXCELLENT annotation made by Schal007 during the UW-Parkside competition in the Fall 2011 semester. On the page for the Mouse ADA17 protein (Mouse:ADA17), this student added the annotation using PMID:20610799.

Here's a list of the evidence codes that CACAO students may use:

  1. IDA: Inferred from Direct Assay
  2. IMP: Inferred from Mutant Phenotype
  3. IGI: Inferred from Genetic Interaction - requires with/from field to be filled in
  4. IEP: Inferred from Expression Pattern
  5. ISO: Inferred from Sequence Orthology - requires with/from field to be filled in
  6. ISA: Inferred from Sequence Alignment - requires with/from field to be filled in
  7. ISM: Inferred from Sequence Model - requires with/from field to be filled in
  8. IGC: Inferred from Genomic Context

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