Annotation Extension Relation:has regulation target: Difference between revisions

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Statement example:  
Statement example:  


''DNA binding transcription factor A binds the promoter of Polo2 and increases transcription of Polo2''
''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).''


{| class="wikitable" border="1"
{| class="wikitable" border="1"
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| PMID:21502138  
| PMID:21502138  
| IMP
| IMP
| has_regulation_target(WB:WBGene00000247 <span style="color:green">bec-1</span>)|has_regulation_target(WB:WBGene00002980 <span style="color:green">lgg-1</span>
| has_regulation_target(WB:WBGene00000247 <span style="color:green">bec-1</span>)'pipe' has_regulation_target(WB:WBGene00002980 <span style="color:green">lgg-1</span>
|-
|-
| Folded
| Folded
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|-
|-
|}
|}
'''OWL class expression:''' GO:0000122 <span style="color:red">negative regulation of transcription from RNA polymerase II promoter</span> AND has_regulation_target SOME WB:WBGene00000247 <span style="color:red">bec-1</span>
'''OWL class expression:''' GO:0000122 <span style="color:red">negative regulation of transcription from RNA polymerase II promoter</span> AND has_regulation_target SOME WB:WBGene00002980 <span style="color:red">lgg-1</span>


Back to [http://wiki.geneontology.org/index.php/Annotation_Extension:_Capturing_participants Annotation Extension: Capturing participants]
Back to [http://wiki.geneontology.org/index.php/Annotation_Extension:_Capturing_participants Annotation Extension: Capturing participants]

Revision as of 06:35, 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:WBGene00000247 bec-1) 'pipe' 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

Statement example:

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).

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 WBGene00000220 atf-2(tm467) GO:0000122 negative regulation of transcription from RNA polymerase II promoter PMID:21502138 IMP has_regulation_target(WB:WBGene00000247 bec-1)'pipe' has_regulation_target(WB:WBGene00002980 lgg-1
Folded WBGene00000220 atf-2(tm467) GO:0000122 negative regulation of transcription from RNA polymerase II promoter PMID:21502138 IMP No new GO term created

OWL class expression: GO:0000122 negative regulation of transcription from RNA polymerase II promoter AND has_regulation_target SOME WB:WBGene00000247 bec-1 OWL class expression: GO:0000122 negative regulation of transcription from RNA polymerase II promoter AND has_regulation_target SOME WB:WBGene00002980 lgg-1


Back to Annotation Extension: Capturing participants



Back to Annotation usage examples for each annotation extension relation