[DAS2] Re: BioCyc pathway database sharing

Suzanna Lewis suzi at fruitfly.org
Sun Jul 17 20:53:20 UTC 2005

Here is a little bit of additional information. Lincoln has just 
submitted a renewal application for the Reactome grant and it includes 
a collaboration with Peter K and Paul Thomas (ABI) to regularly 
exchange pathways. The plan is to use bioPax and I would guess that 
this can be DAS-ified without too much difficulty.

It is interesting to see the migration of interaction sets (as this 
data gets refined) transmogrified into full-out pathway data, and all 
the intermediate forms in between.


On Jul 13, 2005, at 2:22 PM, Chervitz, Steve wrote:

> My earlier message got sent prematurely. Here's the link to the 
> BioInform
> article:
> http://www.bioinform.com/articles/view-sl.asp?Article=200578124042
> The reason I mention it is that it would be instructive to look into
> BioCyc's pathway tools in light of the pathway DAS extension being 
> proposed
> in the DAS/2 continuation grant. This community may also be ideal 
> candidate
> beta testers of pathway DAS prototypes.
> Steve
>> From: <Chervitz>, Steve <Steve_Chervitz at affymetrix.com>
>> Date: Wed, 13 Jul 2005 14:09:43 -0700
>> To: DAS/2 <das2 at portal.open-bio.org>
>> Subject: BioCyc pathway database sharing
>> The current BioInform has an article about SRI's database adoption 
>> program for
>> the computationally generated pathway databases. He says they are 
>> making
>> available "peer-to-peer database sharing techniques":
>> http://biocyc.org/intro.shtml#adopt
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