Pinpointing differentially expressed domains in complex protein mixtures with the cloud service of PatternLab for Proteomics

dc.creatorLeprevost, Felipe da Veiga
dc.creatorLima, Diogo Borges
dc.creatorCrestani, Juliana
dc.creatorPerez-Riverol, Yasset
dc.creatorZanchin, Nilson Ivo Tonin
dc.creatorBarbosa, Valmir Carneiro
dc.creatorCarvalho, Paulo Costa
dc.date2016-09-22T17:42:23Z
dc.date2016-09-22T17:42:23Z
dc.date2013
dc.date.accessioned2023-09-26T20:15:39Z
dc.date.available2023-09-26T20:15:39Z
dc.identifierLEPREVOST, Felipe da Veiga et al. Pinpointing differentially expressed domains in complex protein mixtures with the cloud service of PatternLab for Proteomics. J Proteomics, v. 26, n. 89, p. 179-82, 2013.
dc.identifier1874-3919
dc.identifierhttps://www.arca.fiocruz.br/handle/icict/15921
dc.identifier10.1016/j.jprot.2013.06.013
dc.identifier.urihttps://repositorioslatinoamericanos.uchile.cl/handle/2250/8852718
dc.descriptionCNPq, CAPES, FAPERJ, FAPESP, Fundação Araucária, Fiocruz–PDTIS
dc.descriptionMass-spectrometry-based shotgun proteomics has become a widespread technology for analyzing complex protein mixtures. Here we describe a new module integrated into PatternLab for Proteomics that allows the pinpointing of differentially expressed domains. This is accomplished by inferring functional domains through our cloud service, using HMMER3 and Pfam remotely, and then mapping the quantitation values into domains for downstream analysis. In all, spotting which functional domains are changing when comparing biological states serves as a complementary approach to facilitate the understanding of a system's biology. We exemplify the new module's use by reanalyzing a previously published MudPIT dataset of Cryptococcus gattii cultivated under iron-depleted and replete conditions. We show how the differential analysis of functional domains can facilitate the interpretation of proteomic data by providing further valuable insight.
dc.formatapplication/pdf
dc.languagepor
dc.publisherJuan Calvete
dc.rightsopen access
dc.subjectComputational proteomics
dc.subjectBioinformatics
dc.subjectProteomics
dc.subjectProtein domains
dc.subjectFunctional analysis
dc.subjectProteômica
dc.subjectDomínios Proteicos
dc.titlePinpointing differentially expressed domains in complex protein mixtures with the cloud service of PatternLab for Proteomics
dc.typeArticle


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