[Psidev-ms-dev] HUPO-PSI Specification document mzPAF format - 45-day public review

[Sylvie R. <syl...@un...>]

Dear colleagues, dear members of the HUPO-PSI community,

The HUPO Proteomics Standards Initiative (PSI) develops standards for 
documentation and storage of Proteomics data (see http://www.psidev.info 
for an overview of activities).

The Mass Spectrometry and Proteomics Informatics PSI working groups have 
submitted a new recommendation, the PSI Peak Annotation Format (mzPAF) 
consideration and review as a PSI standard. This document presents a 
specification for a fragment ion peak annotation format for mass 
spectra, focused on peptides. This provides a standardized format for 
describing the origin of fragment ions to be used in spectral libraries, 
other formats that aim to describe fragment ions, and software tools 
that annotate fragment ions.

After having passed a 14-day review of the PSI steering group and having 
been revised as requested by the internal reviewers, the proposed 
document, Draft 10 of Version 1.0, now goes through the 45-day public 
and external review until *April 18th, 2023*. The current draft 
specification (.docx) is attached to this e-mail. Further information, 
including any updates to this document, implementations, and examples is 
available in the GitHub repository: https://github.com/HUPO-PSI/mzPAF 
and at https://psidev.info/mzPAF.

This message is to encourage you to contribute to the standards 
development activity by commenting on the document. We invite both 
positive and negative comments on the relevance, correctness, clarity 
and appropriateness of the specification (e.g. is it presented in 
accordance with the templates and clearly written, is it sufficiently 
detailed and comprehensively described and are the examples in agreement 
with the specification?). Comments can be made on the specification as a 
whole or on specific parts.

If you do not feel experienced enough to comment on this document, but 
know colleagues who are, please feel free to forward this message to 
them. There is no requirement that people commenting should have had any 
prior contact with the PSI.

Please send comments by e-mail directly to 
syl...@un... before*April 18th, 2023*.

Thank you very much in advance for your valuable help.

Best regards.

Professor Sylvie RICARD-BLUM - PSI Editor
Pericellular and Extracellular Supramolecular Assemblies
UMR 5246 CNRS - University Lyon 1
Institute of Molecular and Supramolecular Chemistry and Biochemistry
University Claude Bernard Lyon 1, 43 Boulevard du 11 novembre 1918
69622 Villeurbanne Cedex, France
Phone: +33(0)4 72 44 82 32
E-mail: syl...@un...