Cytoscape Wiki|
← Revision 1 as of 2006-11-20 20:21:55 →
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Comment: Corrected several errors in the description
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1. User 1. ... 1. ... |
1. User specifies a protein to transcribe 1. User optionally specifies another species that originates the transcription process 1. User specifies that there is a ../TranscriptionShorthand relationship between the two 1. User optionally specifies the evidence for this reaction |
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The symbol for ../TranscriptionShorthand is simular to ../ProductAppears, except that there are a pair of right angles near the head: attachment:transcriptionshorthand1_061120_dwk.PNG An example in context follows: attachment:transcriptionshorthand3_061121_dwk.PNG The ../TranscriptionShorthand hides many of the transcription details. So the following detailed representation show here: attachment:transcriptionshorthand2_061120_dwk.PNG Might be represented more simply as follows: attachment:transcriptionshorthand2_061121_dwk.PNG The ../TranscriptionShorthand concept differs from ../ProductAppears, in that in ../TranscriptionShorthand, the product must appear through transcription. In ../ProductAppears, the product may appear through any mechanism. attachment:transcriptionshorthand4_061121_dwk.PNG |
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| TBD | This is a fairly common structure, and is of moderate importance. |
Use Case Name : ../TranscriptionShorthand |
For Feature : MIMEditor |
Editors: DavidKane |
Summary
A user wants to describe the possibility a protein is transcribed, without showing in detail, all of the mechanisms.
Step-by-Step User Action
- User specifies a protein to transcribe
- User optionally specifies another species that originates the transcription process
User specifies that there is a ../TranscriptionShorthand relationship between the two
- User optionally specifies the evidence for this reaction
Visual Aides
The symbol for ../TranscriptionShorthand is simular to ../ProductAppears, except that there are a pair of right angles near the head:
attachment:transcriptionshorthand1_061120_dwk.PNG
An example in context follows:
attachment:transcriptionshorthand3_061121_dwk.PNG
The ../TranscriptionShorthand hides many of the transcription details. So the following detailed representation show here:
attachment:transcriptionshorthand2_061120_dwk.PNG
Might be represented more simply as follows:
attachment:transcriptionshorthand2_061121_dwk.PNG
The ../TranscriptionShorthand concept differs from ../ProductAppears, in that in ../TranscriptionShorthand, the product must appear through transcription. In ../ProductAppears, the product may appear through any mechanism. attachment:transcriptionshorthand4_061121_dwk.PNG
Requirements for Cytoscape
TBD
Importance
This is a fairly common structure, and is of moderate importance.
Other Examples
Comments
Shared ../MimEditorUseCaseComments
BioPax representation TBD