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

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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