Abstract:
:PatternLab for proteomics is an integrated computational environment that unifies several previously published modules for the analysis of shotgun proteomic data. The contained modules allow for formatting of sequence databases, peptide spectrum matching, statistical filtering and data organization, extracting quantitative information from label-free and chemically labeled data, and analyzing statistics for differential proteomics. PatternLab also has modules to perform similarity-driven studies with de novo sequencing data, to evaluate time-course experiments and to highlight the biological significance of data with regard to the Gene Ontology database. The PatternLab for proteomics 4.0 package brings together all of these modules in a self-contained software environment, which allows for complete proteomic data analysis and the display of results in a variety of graphical formats. All updates to PatternLab, including new features, have been previously tested on millions of mass spectra. PatternLab is easy to install, and it is freely available from http://patternlabforproteomics.org.
journal_name
Nat Protocjournal_title
Nature protocolsauthors
Carvalho PC,Lima DB,Leprevost FV,Santos MD,Fischer JS,Aquino PF,Moresco JJ,Yates JR 3rd,Barbosa VCdoi
10.1038/nprot.2015.133subject
Has Abstractpub_date
2016-01-01 00:00:00pages
102-17issue
1eissn
1754-2189issn
1750-2799pii
nprot.2015.133journal_volume
11pub_type
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