title: Proteomics application exercise of the Swiss Proteomics Society: report of the SPS'02 session.
abstract: After the success of the mass spectrometry (MS) round table that was held at the first Swiss Proteomics Society congress (SPS'01) in Geneva, the SPS has organized a proteomics application exercise and allocated a full session at the SPS'02 congress. The main objective was to encourage the exchange of expertise in protein identification, with a focus on the use of mass spectrometry, and to create a bridge between the users' questions and the instrument providers' solutions. Two samples were sent to fifteen interested labs, including academic groups and MS hardware providers. Participants were asked to identify and partially characterize the samples. They consisted of a complex mixture of peptide/proteins (sample A) and an almost pure recombinant peptide carrying post-translational modifications (sample B). Sample A was an extract of snake venom from the species Bothrops jararaca. Sample B was a recombinant and modified peptide derived from the shrimp Penaeus vannamei penaeidin 3a. The eight labs that returned results reported the use of a wide range of MS instrumentation and techniques. They mentioned a variety of time and manpower allocations. The origin of sample A was generally identified together with a number of database protein entries. The difficulty of the sample identification lay in the incomplete knowledge of the Bothrops species genome sequence and is discussed. Sample B was generally and correctly identified as penaeidin. However, only one group reported the full primary structure. Interestingly, the approaches were again varied and are discussed in the text.
authors.affiliation: Swiss Institute of Bioinformatics (SIB), Centre Médical Universitaire, 1 Michel-Servet, CH-1211 Geneva 4, Switzerland.
authors.forename: Pierre-Alain
authors.initials: PA
authors.lastname: Binz
authors.forename: Fadi
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authors.lastname: Abdi
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authors.lastname: Affolter
authors.forename: Laure
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authors.lastname: Allard
authors.forename: Jachen
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authors.lastname: Barblan
authors.forename: Sanjeev
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authors.lastname: Bhardwaj
authors.forename: Willy V
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authors.lastname: Bienvenut
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authors.lastname: Bulet
authors.forename: Jennifer
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authors.lastname: Burgess
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authors.forename: Hélène
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authors.lastname: Diemer
authors.forename: Philippe
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authors.lastname: Favreau
authors.forename: Elia
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authors.lastname: Giuliano
authors.forename: Yannick
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authors.lastname: Gueguen
authors.forename: Elisabeth
authors.initials: E
authors.lastname: Guillaume
authors.forename: Stephanie
authors.initials: S
authors.lastname: Hahner
authors.forename: Petr
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authors.lastname: Man
authors.forename: Sophie
authors.initials: S
authors.lastname: Michalet
authors.forename: Dario
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authors.lastname: Neri
authors.forename: Dimitrios
authors.initials: D
authors.lastname: Noukakis
authors.forename: Patricia
authors.initials: P
authors.lastname: Palagi
authors.forename: Pierre
authors.initials: P
authors.lastname: Paroutaud
authors.forename: Daniel Carvalho
authors.initials: DC
authors.lastname: Pimenta
authors.forename: Manfredo
authors.initials: M
authors.lastname: Quadroni
authors.forename: Anja
authors.initials: A
authors.lastname: Resemann
authors.forename: Sophie
authors.initials: S
authors.lastname: Richert
authors.forename: Jascha
authors.initials: J
authors.lastname: Rybak
authors.forename: Jean-Charles
authors.initials: JC
authors.lastname: Sanchez
authors.forename: Alexander
authors.initials: A
authors.lastname: Scherl
authors.forename: Simone
authors.initials: S
authors.lastname: Scheurer
authors.forename: Ulrike
authors.initials: U
authors.lastname: Schweiger Hufnagel
authors.forename: Christoph
authors.initials: C
authors.lastname: Siethoff
authors.forename: Detlev
authors.initials: D
authors.lastname: Suckau
authors.forename: Alain
authors.initials: A
authors.lastname: van Dorsselaer
authors.forename: Winfried
authors.initials: W
authors.lastname: Wagner Redeker
authors.forename: Nadia
authors.initials: N
authors.lastname: Walter
authors.forename: Reto
authors.initials: R
authors.lastname: Stöcklin
mesh_terms: D013058:Mass Spectrometry; D040901:Proteomics