New insights into functional regulation in MS-based drug profiling

Carvalho, A.S.; Molina, H.; Matthiesen, Rune

Publication

New insights into functional regulation in MS-based drug profiling

2016-01-08Journal article

dc.contributor.author	Carvalho, A.S.
dc.contributor.author	Molina, H.
dc.contributor.author	Matthiesen, Rune
dc.date.accessioned	2016-05-24T16:33:03Z
dc.date.available	2016-05-24T16:33:03Z
dc.date.issued	2016-01-08
dc.description.abstract	We present a novel data analysis strategy which combined with subcellular fractionation and liquid chromatography-mass spectrometry (LC-MS) based proteomics provides a simple and effective workflow for global drug profiling. Five subcellular fractions were obtained by differential centrifugation followed by high resolution LC-MS and complete functional regulation analysis. The methodology combines functional regulation and enrichment analysis into a single visual summary. The workflow enables improved insight into perturbations caused by drugs. We provide a statistical argument to demonstrate that even crude subcellular fractions leads to improved functional characterization. We demonstrate this data analysis strategy on data obtained in a MS-based global drug profiling study. However, this strategy can also be performed on other types of large scale biological data.	pt_PT
dc.description.sponsorship	We thank Dr. Fridtjof Lund-Johansen for critical comments on the manuscript text. The Proteomics Resource Center at The Rockefeller University acknowledges funding from the Leona M. and Harry B. Helmsley Charitable Trust for mass spectrometer instrumentation. Cost of all experiments including MS analysis were supported by the Portuguese Foundation for Science and Technology (EXPL/DTP-PIC/0616/2013). R.M. is supported FCT investigator program 2012. A.S.C. is supported by the Portuguese Foundation for Science and Technology (FCT), financed by the European Social Funds (COMPETE-FEDER) and national funds of the Portuguese Ministry of Education and Science (POPH-QREN) fellowship SFRH/85569/2012.	pt_PT
dc.identifier.citation	Sci Rep. 2016 Jan 8;6:18826. doi: 10.1038/srep18826	pt_PT
dc.identifier.doi	doi: 10.1038/srep18826.	pt_PT
dc.identifier.issn	2045-2322
dc.identifier.uri	http://hdl.handle.net/10400.18/3818
dc.language.iso	eng	pt_PT
dc.peerreviewed	yes	pt_PT
dc.publisher	Nature Publishing Group	pt_PT
dc.relation	Identificação global por Espectrometria de Massa de aspirados bronquiais: visando modificações específicas do cancro do pulmão.
dc.relation.publisherversion	http://www.nature.com/articles/srep18826	pt_PT
dc.rights.uri	http://creativecommons.org/licenses/by-nc/4.0/	pt_PT
dc.subject	LC-MS	pt_PT
dc.subject	Proteomics	pt_PT
dc.subject	Biochemistry	pt_PT
dc.subject	Cell Biology	pt_PT
dc.subject	Cancer	pt_PT
dc.subject	Computational biology and bioinformatics	pt_PT
dc.subject	Chromatography–mass Spectrometry	pt_PT
dc.subject	Genomica Funcional	pt_PT
dc.subject	Genómica Funcional e Estrutural	pt_PT
dc.title	New insights into functional regulation in MS-based drug profiling	pt_PT
dc.type	journal article
dspace.entity.type	Publication
oaire.awardTitle	Identificação global por Espectrometria de Massa de aspirados bronquiais: visando modificações específicas do cancro do pulmão.
oaire.awardURI	info:eu-repo/grantAgreement/FCT/3599-PPCDT/EXPL%2FDTP-PIC%2F0616%2F2013/PT
oaire.citation.endPage	11	pt_PT
oaire.citation.startPage	1	pt_PT
oaire.citation.title	Scientific Reports	pt_PT
oaire.citation.volume	6	pt_PT
oaire.fundingStream	3599-PPCDT
project.funder.identifier	http://doi.org/10.13039/501100001871
project.funder.name	Fundação para a Ciência e a Tecnologia
rcaap.rights	openAccess	pt_PT
rcaap.type	article	pt_PT
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relation.isProjectOfPublication.latestForDiscovery	e580f746-a5e9-4b40-90b8-99c2f308c44a