Table 7 Gene Entity Recognition errors and potential solutions
Error Class | Error | Example (PMCID) | Potential Solution |
|---|---|---|---|
Synonym Not Found | New synonym is not found in databases | AtHscB (PMC2764847) | Increase breadth of databases searched by tool |
| Â | Species prefix obfuscates synonym | AtHscB (PMC2764847) | Ability to add synonym or species-specific rules for string matching |
Ambiguity | Synonym is a common English word | WASp | Ability to add or remove a synonym and reprocess highlighting |
| Â | Synonym maps to more than one identifier | AIP1 | Present matches simultaneously with clues like other synonyms and interacting partners |
| Â | Species not clearly specified | Reference 5 in PMC2680910 | Be able to navigate to other sections of the paper, other papers; be able to curate to orthologous cluster of proteins |
| Â | Synonym refers to a protein family or an enzymatic activity | Â | Ability to curate to protein family or orthologous cluster of proteins |