implementing data standards: a report on the HUPOPSI workshop September 2009, Toronto, Canada

Proteomics
Sandra OrchardHenning Hermjakob

Abstract

The plenary session of the Proteomics Standards Initiative of the Human Proteome Organisation at the 8th Annual HUPO World Congress updated the delegates on the current status of the ongoing work of this group. The mass spectrometry group reviewed the progress of mzML since its release last year and detailed new work on providing a common format for SRM/MRM transition lists (TraML). The implementation of mzIdentML, for describing the output of proteomics search engines, was outlined and the release of a new web service PSICQUIC, which allows users to simultaneously search multiple interaction databases, was announced. Finally, the audience participated in a lively debate, discussing both the benefits of these standard formats and issues with their adoption and use in a research environment.

References

Jul 2, 2008·Journal of Proteomics·Xavier RobinFrédérique Lisacek
Aug 9, 2008·Nature Biotechnology·Frank GibsonAndrew R Jones
Jul 10, 2009·Nature Biotechnology·Harald BarsnesLennart Martens
Oct 17, 2009·Proteomics·Luisa Montecchi-PalazziHenning Hermjakob

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Citations

Jun 22, 2011·Human Genetics·Kristen Fortney, Igor Jurisica
Nov 8, 2011·Journal of Proteome Research·Christopher R KinsingerHenry Rodriguez
Oct 12, 2012·Nature Biotechnology·Matthew C ChambersParag Mallick
Oct 11, 2011·Molecular & Cellular Proteomics : MCP·J Alberto Medina-AunonJuan P Albar
Nov 5, 2011·Molecular & Cellular Proteomics : MCP·Christopher R KinsingerHenry Rodriguez
Nov 4, 2010·Nucleic Acids Research·Damian SzklarczykChristian von Mering
Jan 4, 2012·Proteomics. Clinical Applications·Christopher R KinsingerHenry Rodriguez
Jan 16, 2013·Proteomics·J Alberto Medina-AunonAndrew J Jones
Jan 27, 2010·Proteomics·Eric W DeutschRuedi Aebersold
Mar 3, 2015·Journal of the American Medical Informatics Association : JAMIA·Eric W DeutschHenning Hermjakob
Jan 15, 2014·International Journal of Obesity : Journal of the International Association for the Study of Obesity·M Potvin Kent, A Wanless

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