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dc.contributor.authorBarsnes, Harald
dc.contributor.authorMikalsen, Svein-Ole
dc.contributor.authorEidhammer, Ingvar
dc.date.accessioned2015-10-09T01:03:55Z
dc.date.available2015-10-09T01:03:55Z
dc.date.issued2006
dc.identifier.citationBMC Bioinformatics. 2006 Jan 26;7(1):42
dc.identifier.urihttp://hdl.handle.net/10852/46356
dc.description.abstractBackground Proteomics is the study of the proteome, and is critical to the understanding of cellular processes. Two central and related tasks of proteomics are protein identification and protein characterization. Many small laboratories are interested in the characterization of a small number of proteins, e.g., how posttranslational modifications change under different conditions. Results We have developed a software tool called MassSorter for administrating and analyzing data from peptide mass fingerprinting experiments on proteins with known amino acid sequences. It is meant for small scale mass spectrometry laboratories that are interested in posttranslational modifications of known proteins. Several experiments can be compared simultaneously, and the matched and unmatched peak values are clearly indicated. The hits can be sorted according to m/z values (default) or according to the sequence of the protein. Filters defined by the user can mark autolytic protease peaks and other contaminating peaks (keratins, proteins co-migrating with the protein of interest, etc.). Unmatched peaks can be further analyzed for unexpected modifications by searches against a local version of the UniMod database. They can also be analyzed for unexpected cleavages, a highly useful feature for proteins that undergo maturation by proteolytic cleavage, creating new N- or C-terminals. Additional tools exist for visualization of the results, like sequence coverage, accuracy plots, different types of statistics, 3D models, etc. The program and a tutorial are freely available for academic users at http://www.bioinfo.no/software/massSorter. Conclusion MassSorter has a number of useful features that can promote the analysis and administration of MS-data.
dc.language.isoeng
dc.rightsBarsnes et al.
dc.rightsAttribution 2.0 Generic
dc.rights.urihttp://creativecommons.org/licenses/by/2.0/
dc.titleMassSorter: a tool for administrating and analyzing data from mass spectrometry experiments on proteins with known amino acid sequences
dc.typeJournal article
dc.date.updated2015-10-09T01:03:56Z
dc.creator.authorBarsnes, Harald
dc.creator.authorMikalsen, Svein-Ole
dc.creator.authorEidhammer, Ingvar
dc.identifier.doihttp://dx.doi.org/10.1186/1471-2105-7-42
dc.identifier.urnURN:NBN:no-50476
dc.type.documentTidsskriftartikkel
dc.type.peerreviewedPeer reviewed
dc.identifier.fulltextFulltext https://www.duo.uio.no/bitstream/handle/10852/46356/1/12859_2005_Article_781.pdf
dc.type.versionPublishedVersion
cristin.articleid42


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