Annotation Extension Relation:has regulation target: Difference between revisions
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== Using examples (from above) to demonstrate [[Folding_and_Unfolding]] using the relationship has_regulation_target == | |||
==== Specifying the gene which is a target of a transcription factor ==== | ==== Specifying the gene which is a target of a transcription factor ==== | ||
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| IDA | | IDA | ||
| has_regulation_target(UNIPROT:Qxxx <span style="color:green">Polo2</span>) | | has_regulation_target(UNIPROT:Qxxx <span style="color:green">Polo2</span>) | ||
| | |- | ||
| Folded | |||
| Pxxx <span style="color:green">transcription factor A</span> | |||
| GO:0001228 <span style="color:green">RNA polymerase II transcription regulatory region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription</span> | |||
| PMID:xxx | |||
| IDA | |||
| | |||
| <span style="color:red">No new GO term created</span> | |||
|- | |||
|} | |} | ||
Revision as of 05:30, 5 March 2015
Back to Annotation usage examples for each annotation extension relation
Definition
Identifies a gene or gene product affected by a regulation Biological Process or regulator Molecular Function.
Child terms
- None
Scope of use
Domain
GO:0065007 ! biological regulation
Range
ENTITY_UNION:0000005 ! chemical, gene product or complex
Annotation Extension Usage Examples
Loss of transcription factor activity affects gene expression:
Statements from paper:
Indeed, LGG-1 was massively upregulated in atf-2(tm467) mutant embryos, as compared with the wild type (Fig. 6A). We observed a similar extent of BEC-1 upregulation in the atf-2-deficient background (data not shown).
Gene Name (col 2) | GO ID (col 5) | Reference (col 6) | Evidence (col 7) | Annotation Extension (col 16) |
---|---|---|---|---|
WBGene00000220 atf-2(tm467) | GO:0000122 negative regulation of transcription from RNA polymerase II promoter | PMID:21502138 | IMP | has_regulation_target(WB:WBGene00002980 lgg-1 |
Using examples (from above) to demonstrate Folding_and_Unfolding using the relationship has_regulation_target
Specifying the gene which is a target of a transcription factor
gene transcription targets This example is still under discussion.
Statement example:
DNA binding transcription factor A binds the promoter of Polo2 and increases transcription of Polo2
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 | Pxxx transcription factor A | GO:0001228 RNA polymerase II transcription regulatory region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription | PMID:xxx | IDA | has_regulation_target(UNIPROT:Qxxx Polo2) | |
Folded | Pxxx transcription factor A | GO:0001228 RNA polymerase II transcription regulatory region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription | PMID:xxx | IDA | No new GO term created |
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Back to Annotation usage examples for each annotation extension relation