[BioC] CDF/Probe/Annotation for GNF1m custom chip

[James W. MacDonald]

Kasper Daniel Hansen wrote:

> Is this also the case where someone offers to maintain the CDF  package 
> and the CDF package in question may have a large )at least  larger than 
> a single lab) audience (collaborating labs using the same  chip). I 
> think I will be in that situation "soon".

We had a discussion about this a couple of years ago and at that time 
the consensus was that we would only offer those packages that are 
freely downloadable from Affy.

I would still argue for keeping this paradigm, mainly because Affy as a 
company is particularly worried about the ownership of intellectual 
property (have you ever read their Terms of Use document that comes with 
the chips? I'm no lawyer, but it appears to me that you _barely_ have 
the right to even use the chip, and that point is debatable.).

Legal issues aside, a custom chip by definition has an extremely limited 
group of users, but the amount of work required to host the chip is the 
same as for something like an hgu133plus2. At some point you have to say 
that the effort expended to do something is greater than the aggregate 
benefit for end users, and with limited resources keeping the 
cost/benefit ratio small is very important.

Best,

Jim


> 
> Kasper
> 
> 
>> Best,
>>
>> Jim
>>
>>
>>>
>>> Cei
>>>
>>
>>
>> -- 
>> James W. MacDonald, M.S.
>> Biostatistician
>> Affymetrix and cDNA Microarray Core
>> University of Michigan Cancer Center
>> 1500 E. Medical Center Drive
>> 7410 CCGC
>> Ann Arbor MI 48109
>> 734-647-5623
>>
>>
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> 
> 


-- 
James W. MacDonald, M.S.
Biostatistician
Affymetrix and cDNA Microarray Core
University of Michigan Cancer Center
1500 E. Medical Center Drive
7410 CCGC
Ann Arbor MI 48109
734-647-5623


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Electronic Mail is not secure, may not be read every day, and should not be used for urgent or sensitive issues.