Re: [Psidev-ms-dev] Gettings started with the MS Standard

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

Hi Gerhard, thank you for forwarding the communication. I presented our
work on mzML and related at one of their telecons a few years ago.

Regards,
Eric


> -----Original Message-----
> From: Gerhard Mayer [mailto:Ger...@ru...]
> Sent: Thursday, May 10, 2012 2:24 AM
> To: psi...@li...; psidev-pi-
> de...@li...; Mass spectrometry standard development
> Subject: Re: [Psidev-ms-dev] Gettings started with the MS Standard
>
> Hello proteomics community,
>
> just for information I forward you the mail from Mark Bean from the
> AnIML group.
>
> Best Regards,
> Gerhard
>
> Am 09.05.2012 18:24, schrieb Mark Bean:
> > Dear Gerhard
> >
> > In that case, I am pleased to establish contact!  Thank you for the
> links.  I have subscribed silently to Psidev-pi-dev mailings for ages,
> but haven't kept up.  I should have, and now it is a bit harder to get
> started.
> >
> > AnIML has been going a long time (encapsulating all of analytical
> chemistry through volunteer efforts isn't the fastest car on the
> highway), perhaps too long.  Our web presence has been intentionally
> small because one or two of the major analytical companies started
> selling products that "supported AnIML" long before we had a standard.
> However, we do have the beginnings of a useful website at
> http://animl.sourceforge.net/ (or http://www.animl.org/ which is the
> same).
> >
> > The AnIML schemas are locked, undergoing a final punch-list review
> prior to documentation (we have funds for this from various instrument
> and pharmaceutical companies).  There are two schemas:  one constrains
> all AnIML data files and is immutable, the other constrains the
> Technique Definitions or Technique Extensions that the committee or
> other people create.  The Technique Definitions in turn also constrain
> the AnIML files for terminology, units, content for each Technique
> used.  And herein is a bit of an oddity in that xml AnIML files are
> constrained by another xml Technique Definition, which is not a schema,
> forcing us to create our own validator.
> >
> > So far we have UV-Vis, Chromatography techniques completed, and are
> currently working on NMR and MS.  When those are completed, we will
> ballot the standard and make it public through ASTM.  Originally we
> were working in collaboration with IUPAC, but I'm not sure how active
> their participation is these days.
> >
> > The chief architect of AnIML is Burkhard Schaefer (his father is a
> computer science professor in your country), based on work Burkhard did
> at the National Institute of Standards (NIST) in Washington, DC.  His
> e-mail is b.s...@bs...
> >
> > Best regards, and thanks for the fast response!  I hope to have more
> discussions in the future.
> >
> > Mark
> >
> >
> > -----Original Message-----
> > From: Gerhard Mayer [mailto:Ger...@ru...]
> > Sent: Wednesday, May 09, 2012 11:59 AM
> > To: Mark Bean
> > Subject: Re: Gettings started with the MS Standard
> >
> > Hello Mark,
> >
> > I think we didn't met or talked before, but of course any cooperation
> > between AnIML and psi-ms is always welcome.
> > As I understood AnIML is about spectroscopy of small molecules. Is
> that
> > correct?
> > Can you please send me back an official link to the AnIML?
> >
> > Since this year I am coordinating the psi-ms.obo ontology.
> > You can find it at
> > http://psidev.cvs.sourceforge.net/viewvc/psidev/psi/psi-
> ms/mzML/controlledVocabulary/psi-ms.obo
> > You can open the .obo file in any text editor or by use of OBO-Edit
> > http://oboedit.org/
> >
> > We have also a mailing list, which you can subscribe, so that you
> stay
> > informed with the latest developments of psi-ms.obo:
> > psi...@li...
> >
> > Best Regards,
> > Gerhard
> >
> > Am 09.05.2012 17:19, schrieb Mark Bean:
> >> ASTM E13 Committee on Analytical Data Standards (AnIML)
> --
> ---
> Dipl. Inform. med., Dipl. Wirtsch. Inf. Gerhard Mayer
> BioInformatik
> Medizinisches-Proteom-Center (MPC)
> Ruhr-Universität Bochum
> Zentrum für klinische Forschung I (ZKF I)
> E.042
> Universitätsstrasse 150
> D-44801 Bochum
>
> Phone:	+49(0)234/32-29836
> Fax:	+49(0)234/32-14554
> Email:	Ger...@ru...
> Web:	http://www.medizinisches-proteom-center.de
>
>
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