Is NEO typing PRO identifiers correctly?
vanaukenk opened this issue · 5 comments
@hdrabkin showed me a model this morning where the ShEx is not validating PRO identifiers as chemical entities, i.e. 'has input' PR:nnnnnnnnnnn, for a MF gives a ShEx validation.
How are PRO identifiers currently typed in neo?
Can you paste some specific examples? I looked in NEO and all the PR terms I checked should fall under some CHEBI. Some are under protein while some are under amino acid chain.
some are under amino acid chain.
That looks like wrong chemistry. CHEBI:50047 "a compound formally derived from ammonia by replacing one, two or three hydrogen atoms by organyl groups" looks like a class of small molecules whose members include, for example, the various amino acid residues found in proteins.
@hdrabkin - can you paste the PR ids for the specific examples you showed me? Thanks!
The two in question were actually 'new' (they were the ones that were not in neo for several weeks and then the load was fixed:
[Term]
id: PR:000050486
name: alanine--tRNA ligase, cytoplasmic isoform 1 methylated 1 (mouse)
PR:000050487
name: alanine--tRNA ligase, cytoplasmic isoform 1 unmethylated 1 (mouse)