Changes between Version 4 and Version 5 of PrePostComposeGO


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Timestamp:
Feb 25, 2015, 4:27:28 PM (6 years ago)
Author:
vw253
Comment:

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  • PrePostComposeGO

    v4 v5  
    1919
    2020*reason: "during" only says that things happen at the same time, not whether one is part of the other, so it's not very informative. Happening at the same time could be a coincidence.
     21
     22== Case: process X involved in process  Y  ==
     23
     24Usually we would precompose these.
     25An exception to this rule is when a signalling pathway is activated by a number of different stresses. In this case the stress will be added as a "during..." extension. The rationale for this exception is that the specific annotations do not offer any obvious benefits to users (for enrichments etc). This would change if  2 distinct pathways were observed with  distinct gene products annotated for each pathway (this test can be used to make  decisions about further proposed exceptions). Note that you should continue to make a concurrent "response to x stress" for these gene products.