[go] What are evidence codes for?

[Jim Hu]

On Sep 14, 2007, at 1:47 PM, David Hill wrote:

> Exactly. We spend a great deal of time arguing about exactly which  
> evidence code to use in an annotation. Can we come up with a list  
> of where we have seen the research community using GO and determine  
> how they have used the codes?

I suspect that my research community will find them useful but needs  
to learn a lot more about GO first.  Sometimes the project is going  
to have to anticipate user needs before the users know that they have  
them.

>
> I have seen the IPI evidence code used to mine protein interactions
> I have seen people discriminate between experimentally verified  
> annotations and 'computed' annotations.

I'll try to add some to the wiki.

>
> David
>
>
>
>
> Tanya Berardini wrote:
>> Or maybe even more specifically:
>>
>> How does the research community (the annotation consumers) use  
>> evidence codes?
>>
>> How can we, the curators, assess this?
>>
>> Tanya
>>
>>
>> David Hill wrote:
>>> Actually I think this is a great question. So I'd like to add,  
>>> how do people use evidence codes, and when they use them, how do  
>>> they use them?
>>>
>>> David
>>>
>>> Ben Hitz wrote:
>>>>
>>>> This is going to sound really flip - but why, precisely, do we  
>>>> track evidence codes?  Do you feel they are serving their  
>>>> intended purpose?
>>>>
>>>> The GO docs are somewhat vague on this:
>>>> "The annotation must indicate what kind of evidence is found in  
>>>> the cited source to support the association between the gene  
>>>> product and the GO term"
>>>>
>>>> There is lot of talk about what evidence codes are, and details  
>>>> about what falls into what class - but in order to address these  
>>>> issues I think it might be useful to think about WHY.
>>>>
>>>> Ben
>>>> -- 
>>>> Ben Hitz
>>>> Senior Scientific Programmer ** Saccharomyces Genome Database **  
>>>> GO Consortium
>>>> Stanford University ** hitz at genome.stanford.edu
>>>>
>>>>
>>>>
>>>
>>
>
>

=====================================
Jim Hu
Associate Professor
Dept. of Biochemistry and Biophysics
2128 TAMU
Texas A&M Univ.
College Station, TX 77843-2128
979-862-4054


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