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---- GaryBader - 2006-12-26 12:27:17 BioPAX - part of gene regulation proposal for next level. ---- AllanKuchinsky - 2007-01-22 05:18:58 can be handled by a new Edge type and associated rendering? |
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would require modifications to vizmapper for edge rendering, or custom edge graphics? ---- AllanKuchinsky - 2007-05-25 10:12:53 Actually, since the bend is hear the head of the target node, couldn't we just support it with a new type of arrowhead? Or is it best handled as an edge with anchor points and right-angle constraints? |
Use Case Name : ../TranscriptionInhibitionShorthand |
For Feature : MIMEditor |
Editors: DavidKane |
Summary
A user wants to describe the possibility that one species can inhibit transcription of a protein, without showing in detail, all of the mechanisms.
Step-by-Step User Action
- User specifies a species as the inhibitor
- User specifies a transcription reaction to inhibit
User specifies that there is a ../TranscriptionInhibitionShorthand relationship between the two
- User optionally specifies the evidence for this reaction
Visual Aides
The symbol for ../TranscriptionInhibitionShorthand follows:
attachment:transcriptioninhibitionshorthand1_061120_dwk.PNG
An example showing A inhibiting the transcription of B follows:
attachment:transcriptioninhibitionshorthand2_061121_dwk.PNG
There are two right angles near the head. This can be more clearly seen when there is a longer edge.
attachment:transcriptioninhibitionshorthand4_061121_dwk.PNG
This use case differs from ../ShowInhibition in that the mechanism represented by ../TranscriptionInhibitionShorthand is inhibition of transcription, where as ../ShowInhibition can represent any mechanism of inhibition.
Requirements for Cytoscape
TBD
Importance
This has been used infrequently, and so is of a lower priority. ../ShowInhibition is usually sufficient.
Other Examples
Comments
Shared ../MimEditorUseCaseComments
BioPax representation TBD
GaryBader - 2006-12-26 12:27:17
BioPAX - part of gene regulation proposal for next level.
AllanKuchinsky - 2007-01-22 05:18:58
can be handled by a new Edge type and associated rendering?
would require modifications to vizmapper for edge rendering, or custom edge graphics?
AllanKuchinsky - 2007-05-25 10:12:53
Actually, since the bend is hear the head of the target node, couldn't we just support it with a new type of arrowhead? Or is it best handled as an edge with anchor points and right-angle constraints?