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Por favor, use este identificador para citar o enlazar a este item: http://hdl.handle.net/10261/123258
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dc.contributor.authorDíez, Paula-
dc.contributor.authorDégano, Rosa M.-
dc.contributor.authorGonzález-Nuñez, María-
dc.contributor.authorIbarrola, Nieves-
dc.contributor.authorPérez-Andrés, Martin-
dc.contributor.authorMarko-Varga, György-
dc.contributor.authorLaBaer, Joshua-
dc.contributor.authorOrfao, Alberto-
dc.contributor.authorCorrales, Fernando J.-
dc.contributor.authorDe Las Rivas, Javier-
dc.contributor.authorFuentes, Manuel-
dc.date.accessioned2015-10-09T13:18:43Z-
dc.date.available2015-10-09T13:18:43Z-
dc.date.issued2015-
dc.identifierdoi: 10.1021/acs.jproteome.5b00474-
dc.identifierissn: 1535-3893-
dc.identifiere-issn: 1535-3907-
dc.identifier.citationJournal of Proteome Research 14(9): 3530-3540 (2015)-
dc.identifier.urihttp://hdl.handle.net/10261/123258-
dc.descriptionet al.-
dc.description.abstractA comprehensive study of the molecular active landscape of human cells can be undertaken to integrate two different but complementary perspectives: transcriptomics, and proteomics. After the genome era, proteomics has emerged as a powerful tool to simultaneously identify and characterize the compendium of thousands of different proteins active in a cell. Thus, the Chromosome-centric Human Proteome Project (C-HPP) is promoting a full characterization of the human proteome combining high-throughput proteomics with the data derived from genome-wide expression profiling of protein-coding genes. Here we present a full proteomic profiling of a human lymphoma B-cell line (Ramos) performed using a nanoUPLC-LTQ-Orbitrap Velos proteomic platform, combined to an in-depth transcriptomic profiling of the same cell type. Data are available via ProteomeXchange with identifier PXD001933. Integration of the proteomic and transcriptomic data sets revealed a 94% overlap in the proteins identified by both -omics approaches. Moreover, functional enrichment analysis of the proteomic profiles showed an enrichment of several functions directly related to the biological and morphological characteristics of B-cells. In turn, about 30% of all protein-coding genes present in the whole human genome were identified as being expressed by the Ramos cells (stable average of 30% genes along all the chromosomes), revealing the size of the protein expression-set present in one specific human cell type. Additionally, the identification of missing proteins in our data sets has been reported, highlighting the power of the approach. Also, a comparison between neXtProt and UniProt database searches has been performed. In summary, our transcriptomic and proteomic experimental profiling provided a high coverage report of the expressed proteome from a human lymphoma B-cell type with a clear insight into the biological processes that characterized these cells. In this way, we demonstrated the usefulness of combining -omics for a comprehensive characterization of specific biological systems.-
dc.description.sponsorshipWe gratefully acknowledge financial support from the Carlos III Health Institute of Spain (ISCIII, FIS PI11/02114, FIS PI14/01538, and FIS PI12/00624), Fondos FEDER (EU) and Junta Castilla-León SA198A12-2. The Proteomics Unit belongs to ProteoRed, PRB2-ISCIII, supported by grant PT13/0001. P.D. and C.D. are supported by a JCYL-EDU/346/2013 Ph.D. scholarship.-
dc.publisherAmerican Chemical Society-
dc.rightsclosedAccess-
dc.titleIntegration of proteomics and transcriptomics data sets for the analysis of a lymphoma B-cell line in the context of the chromosome-centric human proteome project-
dc.typeartículo-
dc.identifier.doi10.1021/acs.jproteome.5b00474-
dc.date.updated2015-10-09T13:18:43Z-
dc.description.versionPeer Reviewed-
dc.language.rfc3066eng-
dc.contributor.funderJunta de Castilla y León-
dc.contributor.funderInstituto de Salud Carlos III-
dc.contributor.funderEuropean Commission-
dc.relation.csicSí-
dc.identifier.funderhttp://dx.doi.org/10.13039/501100004587es_ES
dc.identifier.funderhttp://dx.doi.org/10.13039/501100000780es_ES
dc.identifier.funderhttp://dx.doi.org/10.13039/501100014180es_ES
dc.type.coarhttp://purl.org/coar/resource_type/c_6501es_ES
item.openairetypeartículo-
item.grantfulltextnone-
item.cerifentitytypePublications-
item.openairecristypehttp://purl.org/coar/resource_type/c_18cf-
item.fulltextNo Fulltext-
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