When to use

Find ChEBI IDs for chemical entities to use in GO term definitions
Determine the correct protonation state for a chemical
Understand chemical classification and parent classes
Create biosynthetic process or metabolic process terms that reference chemicals
Verify chemical cross-references

The general thing to keep in mind is that selecting the right CHEBI term is harder than it seems. Don't assume that the term with the most biologist-friendly label is the right one!

CRITICAL: Protonation State Selection (pH 7.3 Canonicalization)

For GO term logical definitions, ALWAYS prefer the major species at physiological pH (approximately 7.3).

for chemicals with different protonation states, the ph7.3 form must be used
for chemicals with different stereoisomers, the appropriate L or D form must be used (except in very rare cases where we want to be agnostic)

Exemplar term

When to use

Find ChEBI IDs for chemical entities to use in GO term definitions
Determine the correct protonation state for a chemical
Understand chemical classification and parent classes
Create biosynthetic process or metabolic process terms that reference chemicals
Verify chemical cross-references

The general thing to keep in mind is that selecting the right CHEBI term is harder than it seems. Don't assume that the term with the most biologist-friendly label is the right one!

CRITICAL: Protonation State Selection (pH 7.3 Canonicalization)

For GO term logical definitions, ALWAYS prefer the major species at physiological pH (approximately 7.3).

for chemicals with different protonation states, the ph7.3 form must be used
for chemicals with different stereoisomers, the appropriate L or D form must be used (except in very rare cases where we want to be agnostic)

Chemical Entity

When to use

Exemplar term

Chemical Entity

When to use

Exemplar term

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