Has input

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Definition

Identifies an entity affected (bound, transported, modified, consumed or destroyed) by the gene product's participation in a molecular function or biological process.

Synonyms

has_target (EXACT)

localizes (NARROW)

Child terms

If you know that the target is bound by the annotated gene product then consider using this child relationship

• has_direct_input

Scope of use

Domain

BFO:0000007 ! process (Biological Process or Molecular Function)

Range

ENTITY_UNION:0000005 ! chemical, gene product, or complex

Annotation Extension Usage Examples

Enhancing Molecular Function and Biological Process Annotations

Specifying the chemical that was applied and induced a 'response to chemicals'

I think that in_presence_of might be a better relationship choice, but left the example here awaiting confirmation (Ruth)

Here we use the has_input relation - the input to the process is a chemical, the output is some change in state as a result of exposure.

 col5: GO:nnnnnn
 col16: has_input(CHEBI:nnnnn)

Sometimes it is better to request a GO term here

Cellular response to drug

Statement from paper: incubation of cells with low concentrations of phenformin and depletion of Ppm1E increased AMPK phosphorylation

So one of the annotations would be:

DB (Col 2)	Object (Col 3)	GO ID (Col 5)	Reference (Col 6)	Evidence (Col 7)	Extension (Col 16)
Q8WY54	PPM1E	GO:0035690 cellular response to drug	PMID:20801214	IDA	has_input(CHEBI:6801 metformin)

Specifying the protein which is a target of a Biological Process

Proteolysis targets

Statement from paper: MICA shedding by tumor cells was inhibited by silencing of the related ADAM10 and ADAM17 proteases

So one of the annotations would be:

DB (Col 2)	Object (Col 3)	GO ID (Col 5)	Reference (Col 6)	Evidence (Col 7)	Extension (Col 16)
O14672	ADAM10	GO:0006509 membrane protein ectodomain proteolysis	PMID:18676862	IMP	has_input(UNIPROT:Q29983 MICA)

Using examples (from above) to demonstrate Folding_and_Unfolding using the relationship has_input

Specifying the protein which is a target of a Biological Process

Proteolysis targets

Statement from paper: MICA shedding by tumor cells was inhibited by silencing of the related ADAM10 and ADAM17 proteases

Folded/unfolded	Gene Name (col 2)	GO ID (col 5)	Reference (col 6)	Evidence (col 7)	Annotation Extension (col 16)	Parent terms of new folded GO term
Unfolded	O14672 ADAM10	GO:0006509 membrane protein ectodomain proteolysis	PMID:18676862	IMP	has_input(UNIPROT:Q29983 MICA)
Folded	O14672 ADAM10	GO:0006509 membrane protein ectodomain proteolysis	PMID:18676862	IMP		No new GO term created

No new term will be created in this example because this is outside of the scope of GO, although tools using GO could use the relationship to create the following:

Folded/unfolded	Gene Name (col 2)	GO ID (col 5)	Reference (col 6)	Evidence (col 7)	Annotation Extension (col 16)	Parent terms of new folded GO term
Unfolded	O14672 ADAM10	GO:0006509 membrane protein ectodomain proteolysis	PMID:18676862	IMP	has_input(UNIPROT:Q29983 MICA)
Folded	O14672 ADAM10	New GO term membrane protein ectodomain proteolysis of MICA	PMID:18676862	IMP		GO:0006509 membrane protein ectodomain proteolysis

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