'glycan G00008' misclassified as phopholipid

[ValWood]

Hi,

I am getting a GIc3Man9GIcNAc level classified as "increased phospholipid level' via CHEBI

but GIc3Man9GIcNAc is a dolichyl diphosphooligosaccharide rather than a phospholipid.

[amalik01]

Hi @ValWood

I am trying to understand how your resource/database works. Where are you getting the GIc3Man9GIcNAc name from? I think you may be linking to the wrong ChEBI entry. The name you have mentioned is a polysaccharide whereas glycan G00008 (CHEBI:53019) has a dolichyl diphosphate group attached to the polysaccharide.

[ValWood]

Glc₃Man₉GlcNAc₂ is a specific type of N-linked glycan. I was assuming that 'glycan G00008' was the CHEBI synonym for this since it has been used in our logical definition. This might be incorrect, I will dig deeper.

[ValWood]

ChatGPT:
Yes, Glc₃Man₉GlcNAc₂ is sometimes referred to as Glycan G00008 in specific glycan databases, such as the GlyTouCan database, which provides unique accession numbers for glycans. This naming is database-specific and is used in bioinformatics contexts to uniquely identify glycan structures.

So it does seem that the positioning of 'Glycan G00008' in CHEBI is incorrect?