helpful annotation examples
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:
- IDA: Inferred from Direct Assay
- IMP: Inferred from Mutant Phenotype
- IGI: Inferred from Genetic Interaction - requires with/from field to be filled in
- IEP: Inferred from Expression Pattern
- ISO: Inferred from Sequence Orthology - requires with/from field to be filled in
- ISA: Inferred from Sequence Alignment - requires with/from field to be filled in
- ISM: Inferred from Sequence Model - requires with/from field to be filled in
- IGC: Inferred from Genomic Context