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Clean up amino acid metabolic process grouping terms #29444

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edwong57 opened this issue Dec 13, 2024 · 2 comments
Open

Clean up amino acid metabolic process grouping terms #29444

edwong57 opened this issue Dec 13, 2024 · 2 comments
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@edwong57
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Elisabeth Coudert from RHEA suggested that these are not useful grouping terms and should be cleaned up/obsoleted

GO:0009069 serine family amino acid metabolic process
GO:0009078 pyruvate family amino acid metabolic process
GO:0009066 aspartate family amino acid metabolic process
GO:0009064 glutamine family amino acid metabolic process
GO:0000820 regulation of glutamine family amino acid metabolic process
GO:1902221 erythrose 4-phosphate/phosphoenolpyruvate family amino acid metabolic process
& the corresponding biosynthetic/catabolic processes

@edwong57 edwong57 self-assigned this Dec 13, 2024
@deustp01
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not useful grouping terms

Hmmm. Quick searches suggest that diverse workers do find this grouping / classification strategy useful, e.g., "The aspartate pathway is responsible for the biosynthesis of lysine, threonine, isoleucine, and methionine in most plants and microorganisms."; CHEBI:26463 - pyruvate family amino acid. And these usages correspond to metabolic functional similarities among the members of each family. What specifically is said to make them UNuseful?

@edwong57
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@deustp01, good question. @pgaudet, can you clarify with more details? Did she have specific suggestions?

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