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Proteomics application exercise of the Swiss Proteomics Society: Report of the SPS'02 session
Author(s) -
Binz PierreAlain,
Abdi Fadi,
Affolter Michael,
Allard Laure,
Barblan Jachen,
Bhardwaj Sanjeev,
Bienvenut Willy V.,
Bulet Philippe,
Burgess Jennifer,
Carrette Odile,
Corthals Garry,
Delalande François,
Diemer Hélène,
Favreau Philippe,
Giuliano Elia,
Gueguen Yannick,
Guillaume Elisabeth,
Hahner Stephanie,
Man Petr,
Michalet Sophie,
Neri Dario,
Noukakis Dimitrios,
Palagi Patricia,
Paroutaud Pierre,
Carvalho Pimenta Daniel,
Quadroni Manfredo,
Resemann Anja,
Richert Sophie,
Rybak Jascha,
Sanchez JeanCharles,
Scherl Alexander,
Scheurer Simone,
Schweiger Hufnagel Ulrike,
Siethoff Christoph,
Suckau Detlev,
van Dorsselaer Alain,
Wagner Redeker Winfried,
Walter Nadia,
Stöcklin Reto
Publication year - 2003
Publication title -
proteomics
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 1.26
H-Index - 167
eISSN - 1615-9861
pISSN - 1615-9853
DOI - 10.1002/pmic.200300458
Subject(s) - proteomics , sample (material) , session (web analytics) , mass spectrometry , computational biology , identification (biology) , biology , chromatography , chemistry , computer science , genetics , world wide web , botany , gene
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.