Re: [Psidev-ms-dev] [Psidev-pi-dev] [CompMS] Re: [Psi-announce] PSI2020 - Save the Date

[Zaia, J. <jz...@bu...>]

I have been in touch with Nathan Edwards (Georgetown University, copied).  He expressed interest in attending the session to discuss supporting glycoproteomics data.

Best regards,

Joe

From: Eric Deutsch <eri...@is...>
Sent: Tuesday, November 26, 2019 7:40 PM
To: Robert Chalkley <cha...@cg...>; Zaia, Joseph <jz...@bu...>; Jones, Andy <And...@li...>; psi...@eb...; ps...@eb...; Mass spectrometry standard development <psi...@li...>; psi...@li...; Co...@go...
Subject: Re: [Psidev-pi-dev] [CompMS] Re: [Psi-announce] PSI2020 - Save the Date

Hi Robert, great, thanks for contributing! We will try to schedule a specific session for this and announce it so that everyone knows when it is in advance.

Thanks,
Eric


From: co...@go...<mailto:co...@go...> <co...@go...<mailto:co...@go...>> On Behalf Of Robert Chalkley
Sent: Monday, November 25, 2019 9:01 AM
To: Zaia, Joseph <jz...@bu...<mailto:jz...@bu...>>; Jones, Andy <And...@li...<mailto:And...@li...>>; psi...@eb...<mailto:psi...@eb...>; ps...@eb...<mailto:ps...@eb...>; Mass spectrometry standard development <psi...@li...<mailto:psi...@li...>>; psi...@li...<mailto:psi...@li...>; Co...@go...<mailto:Co...@go...>
Subject: [CompMS] Re: [Psi-announce] [Psidev-pi-dev] PSI2020 - Save the Date


I would also be keen to be involved in discussions about supporting glycopeptide data.

Robert
On 11/22/2019 11:21 AM, Zaia, Joseph wrote:
Dear All,

I would like to initiate discussion for expanding the use cases for proteomics to include complex protein glycosylation.  Glycosylation is as a rule heterogeneous, with 30 or so glycoforms per glycosite.  In addition, the glycan dissociates during tandem MS experiments.  The software and data standards need to be expanded to include the glycosylation size, heterogeneity, and tandem MS dissociation.  At present, quantitative software (Skyline and others) do not recognize glycosylation.  Without this recognition the quantitative tools developed for peptides cannot be adapted without tedious effort on the part of the user.  Therefore, there is need to expand the manner by which peptides are represented informatically.  It is important that glycopeptides be included in the use cases for mzIdentML and mzQuant.  It is also important that spectral library generating software be expanded to allow glycosylated peptides to facilitate use of data independent experiments for glycoproteins.

Would it be possible for me to communicate these ideas at the PSI Workshop in San Diego?

Thank you.

Joe Zaia
From: Jones, Andy <And...@li...><mailto:And...@li...>
Sent: Thursday, November 21, 2019 11:29 AM
To: psi...@eb...<mailto:psi...@eb...>; ps...@eb...<mailto:ps...@eb...>; Mass spectrometry standard development <psi...@li...><mailto:psi...@li...>; psi...@li...<mailto:psi...@li...>; Co...@go...<mailto:Co...@go...>
Subject: [Psidev-pi-dev] PSI2020 - Save the Date

Hi all,

We are pleased to announce that the 2020 Annual workshop for the Proteomics Standards Initiative (PSI) will take place in San Diego USA, Mon 23rd to Thurs 26th March 2020. The workshop will focus on developing data standards related to mass spectrometry for spectral libraries, the universal spectrum identifier, quality control and capturing study metadata, and in the molecular interactions side on mapping standards to Cytoscape. We will also be welcoming the new PSI work group – Intrinsically Disordered Proteins (IDP).

Please save the date if you might be interested to attend, we are always pleased to welcome new groups into the PSI. The registration page will be made available in the coming weeks.

Best wishes
Andy Jones on behalf of the PSI steering committee



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Robert Chalkley PhD

Adjunct Professor

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Tel: 415 476 5189

Fax: 415 502 1655



Mass Spectrometry Facility

University of California San Francisco

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