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OncoMX biomarker issues #22

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DaniallMasood opened this issue Aug 28, 2024 · 0 comments
Open

OncoMX biomarker issues #22

DaniallMasood opened this issue Aug 28, 2024 · 0 comments
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@DaniallMasood
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  1. Presence of non-ascii characters (For example: AA5045-1 has "miRNA‑9-1 gene")
  2. Incorrect 'assessed_entity_type' (For example: AA4867-1 is given as 'gene', but the assessed entity is mRNA)
  3. Overuse of abbreviations (these are disallowed in ontologies) (For example: AA4688-3, 'LYMP' instead of 'lymphocyte')
  4. Incorrect prefixes for databases (CO:CL_nnnnnnn should be CL:nnnnnnn; PRO:PR_nnnnnnnnn should be PR:nnnnnnnnn; NCBI:nnnn should be NCBIGene:nnnn; there might be others since I notice extensive use of your own in-house prefixes).
  5. Incorrect indication of assessed_biomarker_entity (For example: AA4796-2 has a UniProtKB cross-reference, but the actual entity--which IS correctly indicated in the biomarker name--is a processed part of that protein)
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