Re: adding pubmed ids to BAMS

2007-04-20 Thread Mark Montgomery
Well, stepping back a bit from the task at hand, when we looked back and attempted to understand why such strong pre existing demand existed for the WWW that led to wide adoption ("phases of e-commerce" '97 if memory serves), it was in part ironically the need for individuality and expression of

RE: adding pubmed ids to BAMS

2007-04-20 Thread Booth, David (HP Software - Boston)
My 2 cents: If something is important, it should have a name (a URI). See the W3C WebArch sec 2.1 "Good practice: Identify with URIs": http://www.w3.org/TR/webarch/#uri-benefits David Booth, Ph.D. HP Software +1 617 629 8881 office | [EMAIL PROTECTED] http://www.hp.com/go/software > -O

RE: adding pubmed ids to BAMS

2007-04-20 Thread Booth, David (HP Software - Boston)
> From: Alan Ruttenberg > . . . > 2) I think that URIs should function first as unique identifiers, and > only if possible, as elements of user interface. . . . . I basically agree with this, but I think it is possible to strike balance, since humans *do* still need to look at these URIs sometime

Re: adding pubmed ids to BAMS

2007-04-20 Thread Alan Ruttenberg
On Apr 20, 2007, at 1:13 PM, Mark Montgomery wrote: I can see the potential for harm in attempting to zoom in too far on granularity in standardization efforts (understanding the appeal) and would therefore vote for prudent equilibrium between adaptability and fixed. A bit messier perhaps t

Re: adding pubmed ids to BAMS

2007-04-20 Thread Mark Montgomery
Appreciate all of your debates and discussions recently- it's helped me and no doubt others think things through a bit. Suspect many of us are not chiming in to keep noise level down with rare tidbit of value to add- for example in my case we are still primarily on the drawing board in part un

Re: adding pubmed ids to BAMS

2007-04-20 Thread Alan Ruttenberg
Just as something else to think about - The web page you cite does, kind of, name these classes, in that a table is give, with two labeled axes. Each box is, in some way, realizes the class that I am suggesting you create. However, the nature of html make the display of this unobtrusive. I am su

Re: adding pubmed ids to BAMS

2007-04-20 Thread Alan Ruttenberg
Yes, this is an issue. I actually see it as two separate issues: 1) Creating names that are stable 2) Creating names that are readable 1) For stable names, a uri based on the logical definition will do, e.g.manchester syntax definition, or an md5 of that. This will be unambiguous and determinis

Re: PURL and PubMed ids

2007-04-20 Thread Alan Ruttenberg
We've not yet implemented the redirect, or are sure what the redirect should do. One issue is what is the thing that http://purl.org/commons/pmid/7451682 refers to. Is it the pubmed record as it exists now? The class of pubmed records over the years? Also, there are different forms of the pubmed

Re: adding pubmed ids to BAMS

2007-04-20 Thread Kei Cheung
Hi Alan et al, Although are are pros and cons for named classes vs. unnamed classes, I prefer the latter for ease of ontology maintenance. As Huajun pointed out, it's usually not a trivial issues to come up with standard (long) class names that will make both human and machine happy. If these

Re: adding pubmed ids to BAMS

2007-04-20 Thread Alan Ruttenberg
I'm uncertain about the status of comments on anonymous classes. At a minimum, they present present a challenge for current display tools, though I suppose that any solution does. For my display tools I was considering filtering out these named classes in certain types of displays. I was able to

Re: adding pubmed ids to BAMS

2007-04-20 Thread Huajun Chen @ Zhejiang University
We met similar problems when we tried to relate publications to neurons. Check the research notes for CA3 pyramidal neuron: http://senselab.med.yale.edu/senselab/NeuronDB/ndbEavSum.asp?id=259&mo=4&re= All of the notes are about papers supporting the evidences of being present or absent of a rec

Re: adding pubmed ids to BAMS

2007-04-20 Thread jbarkley
ok. Often overlooked, but no less illustrated by the demo, is the ability of underscore people and non-underscore people to work together. jb Date: Thu, 19 Apr 2007 15:44:41 -0400 From: Alan Ruttenberg <[EMAIL PROTECTED]> To: John Barkley <[EMAIL PROTECTED]> Cc: Jonathan Rees <[EMAIL P