• ProCon - PROteomics CONversion...

Treffer: ProCon - PROteomics CONversion tool.

Title:
ProCon - PROteomics CONversion tool.
Authors:
Mayer G; Medizinisches Proteom Center (MPC), Ruhr-Universität Bochum, D-44801 Bochum, Germany., Stephan C; Medizinisches Proteom Center (MPC), Ruhr-Universität Bochum, D-44801 Bochum, Germany; Kairos GmbH, Universitätsstraße 136, D-44799 Bochum, Germany., Meyer HE; Medizinisches Proteom Center (MPC), Ruhr-Universität Bochum, D-44801 Bochum, Germany; Leibniz-Institut für Analytische Wissenschaften, ISAS, e.V., D-44139 Dortmund, Germany., Kohl M; Medizinisches Proteom Center (MPC), Ruhr-Universität Bochum, D-44801 Bochum, Germany., Marcus K; Medizinisches Proteom Center (MPC), Ruhr-Universität Bochum, D-44801 Bochum, Germany., Eisenacher M; Medizinisches Proteom Center (MPC), Ruhr-Universität Bochum, D-44801 Bochum, Germany. Electronic address: martin.eisenacher@rub.de.
Source:
Journal of proteomics [J Proteomics] 2015 Nov 03; Vol. 129, pp. 56-62. Date of Electronic Publication: 2015 Jul 13.
Publication Type:
Journal Article; Research Support, Non-U.S. Gov't
Language:
English
Journal Info:
Publisher: Elsevier Country of Publication: Netherlands NLM ID: 101475056 Publication Model: Print-Electronic Cited Medium: Internet ISSN: 1876-7737 (Electronic) Linking ISSN: 18743919 NLM ISO Abbreviation: J Proteomics Subsets: MEDLINE
Imprint Name(s):
Original Publication: Amsterdam : Elsevier
MeSH Terms:
Database Management Systems* , Databases, Protein* , Natural Language Processing* , Software* , Vocabulary, Controlled*, Proteome/*chemistry, Algorithms ; Information Storage and Retrieval/methods ; Proteome/classification ; Proteomics/methods ; Software Design
Contributed Indexing:
Keywords: Conversion tool; PRIDE; ProCon; ProteomeXchange; Proteomics; mzIdentML
Substance Nomenclature:
0 (Proteome)
Entry Date(s):
Date Created: 20150718 Date Completed: 20160808 Latest Revision: 20170813
Update Code:
20250114
DOI:
10.1016/j.jprot.2015.06.015
PMID:
26182917
Database:
MEDLINE

Weitere Informationen

With the growing amount of experimental data produced in proteomics experiments and the requirements/recommendations of journals in the proteomics field to publicly make available data described in papers, a need for long-term storage of proteomics data in public repositories arises. For such an upload one needs proteomics data in a standardized format. Therefore, it is desirable, that the proprietary vendor's software will integrate in the future such an export functionality using the standard formats for proteomics results defined by the HUPO-PSI group. Currently not all search engines and analysis tools support these standard formats. In the meantime there is a need to provide user-friendly free-to-use conversion tools that can convert the data into such standard formats in order to support wet-lab scientists in creating proteomics data files ready for upload into the public repositories. ProCon is such a conversion tool written in Java for conversion of proteomics identification data into standard formats mzIdentML and Pride XML. It allows the conversion of Sequest™/Comet .out files, of search results from the popular and often used ProteomeDiscoverer® 1.x (x=versions 1.1 to1.4) software and search results stored in the LIMS systems ProteinScape® 1.3 and 2.1 into mzIdentML and PRIDE XML. This article is part of a Special Issue entitled: Computational Proteomics.
(Copyright © 2015. Published by Elsevier B.V.)