Changes between Version 71 and Version 72 of GOAnnotationGuidelines


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Timestamp:
Feb 25, 2015, 6:00:44 PM (6 years ago)
Author:
vw253
Comment:

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  • GOAnnotationGuidelines

    v71 v72  
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    108   * Transcription factors - wherever possible (i.e. make exceptions only when data don't support this):
    109      * transcription factor activity term  (sequence-specific DNA binding transcription factor activity (GO:0003700) or a descendent)  twith any target genes as has_regulation_target extensions and a
    110      * DNA binding term,  "transcription regulatory region sequence-specific DNA binding (GO:0000976)" or a descendent   (most commonly RNA polymerase II core promoter proximal region sequence-specific DNA binding GO:0000978) with any DNA binding motifs ar has_direct_input(SO:ID)
    111         *-otherwise the TF won't be annotated to DNA binding, because the terms are connected by has_part in GO).
     108  * Transcription factors - wherever possible make annotation to both:
     109     *  1. transcription factor activity term  (sequence-specific DNA binding transcription factor activity (GO:0003700) or a descendent)  twith any target genes as has_regulation_target extensions and a
     110     *  2. DNA binding term,  "transcription regulatory region sequence-specific DNA binding (GO:0000976)" or a descendent   (most commonly RNA polymerase II core promoter proximal region sequence-specific DNA binding GO:0000978) with any DNA binding motifs ar has_direct_input(SO:ID)
     111        * Otherwise the TF won't be annotated to DNA binding, because the terms are connected by has_part in GO).  (YOu might need to use ISS or IC to get both)
    112112        * Can also put happens_during extensions on the TF activity term to capture stress, cell cycle phase, etc.
    113113