[Psidev-ms-dev] PSI-MSS WG call notes

[Eric D. <ede...@sy...>]

Present: Fredrik, Matt, Richard, Jim, Eric



Next meeting:

July 27 same time: confirmed



Today’s discussion centered around recent and needed changes to the CV



- PSI web site maintenance:

  - Update OBO-Edit hyperlinks

  - Add browse link to OLS, too



- OBO-Edit 2.1 complains: non-critical warning: nth generation product ion
spectrum (MS:1000339) generated 1 warning:

  The term nth generation product ion spectrum links to the obsolete term
product ion spectrum



- term “run attribute” has no parent and is floating at the top. Fix. Move
under “object attribute” for now.



- Change the term “standard” and its children to be a more generic
“reference” although add term “approved standard”

- reference

  RT norm reference

    H-PINS RT norm reference

- Add Krohkin peptides reference



- Regarding peptide and protein, okay to keep current structure but add in
Chebi relationship

- chemical compound = polyatomic entity

- peptide = polypeptide

- protein = protein



- But strangely, Chebi defines “polypeptide” as being at least 10 AA long.
There is no plain “peptide”. So what is a 9 AA peptide in Chebi? Seems like
just a “molecule” which is odd. Why 10?? Our current definition of “peptide”
is at least 2 AAs. How do we resolve this? Contact Marcus Ennis (mennis@ebi)









*From:* Eric Deutsch [mailto:ede...@sy...]
*Sent:* Tuesday, July 13, 2010 1:17 AM
*To:* 'Mass spectrometry standard development'
*Cc:* 'Eric Deutsch'
*Subject:* PSI-MSS WG call reminder



Hi everyone, the next PSI Mass Spectrometry Standards Working Group call
will be Tuesday 8am PDT:



08:00 San Francisco

11:00 New York

16:00 London

17:00 Geneva



+ Germany: 08001012079

+ Switzerland: 0800000860

+ UK: 08081095644

+ USA: 1-866-314-3683

Generic international: +44 2083222500 (UK number)



access code: 297427 #



Agenda:

1) Review of controlled vocabulary file terms

Have your OBO-Edit open to the latest psi-ms.obo



Next meeting:

- In 2 weeks? July 27?