Transcription jamboree
Examples for discussion at electronic Transcription Jamboree
How much evidence is needed to make MF annotations
i) PMID: 11486045 - Fig 2 I would like to annotate to the obsolete term GO:0016564 transcription repressor activity. How should this be annotated to the MF ontology with the new terms?
ii) We have
GO:0001102 RNA polymerase II activating transcription factor binding
and
GO:0001103 RNA polymerase II repressing transcription factor binding
Should we also have
RNA polymerase II activating/repressing transcription factor ACTIVITY?
Annotation to promoter/DNA binding terms
i) PMID:12270142 Based on figs 1 and 2 have annotated to GO:0045944 positive regulation of transcription from RNA polymerase II promoter Based on fig 3 have annotated to GO:2000679 positive regulation of transcription regulatory region DNA binding
Is this correct or are there other terms that should have been used instead?
ii) PMID: 17332325 Is Fig 3 sufficient to support the following annotations?
GO:0000981 sequence-specific DNA binding RNA polymerase II transcription factor activity
GO:0070888 E-box binding