Poly (A)(+) Transcriptome Assessment of ERBB2-Induced Alterations in Breast Cell Lines

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dc.contributorSistema FMUSP-HC: Faculdade de Medicina da Universidade de São Paulo (FMUSP) e Hospital das Clínicas da FMUSP
dc.contributor.authorCARRARO, Dirce Maria
dc.contributor.authorFERREIRA, Elisa Napolitano
dc.contributor.authorMOLINA, Gustavo de Campos
dc.contributor.authorPUGA, Renato David
dc.contributor.authorABRANTES, Eduardo Fernandes
dc.contributor.authorTRAPE, Adriana Priscila
dc.contributor.authorEKHARDT, Bedrich L.
dc.contributor.authorNUNES, Diana Noronha
dc.contributor.authorBRENTANI, Maria Mitzi
dc.contributor.authorARAP, Wadih
dc.contributor.authorPASQUALINI, Renata
dc.contributor.authorBRENTANI, Helena
dc.contributor.authorDIAS-NETO, Emmanuel
dc.contributor.authorBRENTANI, Ricardo Renzo
dc.date.accessioned2017-11-27T16:25:48Z
dc.date.available2017-11-27T16:25:48Z
dc.date.issued2011
dc.description.abstractWe report the first quantitative and qualitative analysis of the poly (A)(+) transcriptome of two human mammary cell lines, differentially expressing (human epidermal growth factor receptor) an oncogene over-expressed in approximately 25% of human breast tumors. Full-length cDNA populations from the two cell lines were digested enzymatically, individually tagged according to a customized method for library construction, and simultaneously sequenced by the use of the Titanium 454-Roche-platform. Comprehensive bioinformatics analysis followed by experimental validation confirmed novel genes, splicing variants, single nucleotide polymorphisms, and gene fusions indicated by RNA-seq data from both samples. Moreover, comparative analysis showed enrichment in alternative events, especially in the exon usage category, in ERBB2 over-expressing cells, data indicating regulation of alternative splicing mediated by the oncogene. Alterations in expression levels of genes, such as LOX, ATP5L, GALNT3, and MME revealed by large-scale sequencing were confirmed between cell lines as well as in tumor specimens with different ERBB2 backgrounds. This approach was shown to be suitable for structural, quantitative, and qualitative assessment of complex transcriptomes and revealed new events mediated by ERBB2 overexpression, in addition to potential molecular targets for breast cancer that are driven by this oncogene.
dc.description.indexMEDLINE
dc.description.sponsorshipFundacao de Amparo a Pesquisa do Estado de Sao Paulo (FAPESP) [98/14335-2]
dc.description.sponsorshipConselho Nacional de Desenvolvimento Cientifico e Tecnologico (CNPq) [484807/2007-2]
dc.description.sponsorshipNational Institutes of Health (NIH)
dc.description.sponsorshipDepartment of Defense (DOD)
dc.identifier.citationPLOS ONE, v.6, n.6, article ID e21022, 12p, 2011
dc.identifier.doi10.1371/journal.pone.0021022
dc.identifier.issn1932-6203
dc.identifier.urihttps://observatorio.fm.usp.br/handle/OPI/22889
dc.language.isoeng
dc.publisherPUBLIC LIBRARY SCIENCE
dc.relation.ispartofPlos One
dc.rightsopenAccess
dc.rights.holderCopyright PUBLIC LIBRARY SCIENCE
dc.subject.otherexpressing different levels
dc.subject.othergene-expression
dc.subject.otherepithelial-cells
dc.subject.otherserial analysis
dc.subject.otherlysyl oxidase
dc.subject.othercancer
dc.subject.otheroncogene
dc.subject.othertherapy
dc.subject.othermodel
dc.subject.othererbb2
dc.subject.wosMultidisciplinary Sciences
dc.titlePoly (A)(+) Transcriptome Assessment of ERBB2-Induced Alterations in Breast Cell Lines
dc.typearticle
dc.type.categoryoriginal article
dc.type.versionpublishedVersion
dspace.entity.typePublication
hcfmusp.affiliation.countryEstados Unidos
hcfmusp.affiliation.countryisous
hcfmusp.author.externalCARRARO, Dirce Maria:Hosp AC Camargo Fund Antonio Prudente, Ctr Int Ensino & Pesquisa, Sao Paulo, Brazil
hcfmusp.author.externalFERREIRA, Elisa Napolitano:Hosp AC Camargo Fund Antonio Prudente, Ctr Int Ensino & Pesquisa, Sao Paulo, Brazil; Univ Sao Paulo, Inst Biociencias, Sao Paulo, Brazil
hcfmusp.author.externalMOLINA, Gustavo de Campos:Hosp AC Camargo Fund Antonio Prudente, Ctr Int Ensino & Pesquisa, Sao Paulo, Brazil
hcfmusp.author.externalPUGA, Renato David:Hosp AC Camargo Fund Antonio Prudente, Ctr Int Ensino & Pesquisa, Sao Paulo, Brazil
hcfmusp.author.externalABRANTES, Eduardo Fernandes:Hosp AC Camargo Fund Antonio Prudente, Ctr Int Ensino & Pesquisa, Sao Paulo, Brazil
hcfmusp.author.externalEKHARDT, Bedrich L.:Univ Texas MD Anderson Canc Ctr, David H Koch Ctr, Houston, TX 77030 USA
hcfmusp.author.externalNUNES, Diana Noronha:Hosp AC Camargo Fund Antonio Prudente, Ctr Int Ensino & Pesquisa, Sao Paulo, Brazil; Univ Texas MD Anderson Canc Ctr, David H Koch Ctr, Houston, TX 77030 USA
hcfmusp.author.externalARAP, Wadih:Univ Texas MD Anderson Canc Ctr, David H Koch Ctr, Houston, TX 77030 USA
hcfmusp.author.externalPASQUALINI, Renata:Univ Texas MD Anderson Canc Ctr, David H Koch Ctr, Houston, TX 77030 USA
hcfmusp.author.externalBRENTANI, Ricardo Renzo:Hosp AC Camargo Fund Antonio Prudente, Ctr Int Ensino & Pesquisa, Sao Paulo, Brazil
hcfmusp.citation.scopus17
hcfmusp.contributor.author-fmusphcADRIANA PRISCILA TRAPE
hcfmusp.contributor.author-fmusphcMARIA MITZI BRENTANI
hcfmusp.contributor.author-fmusphcHELENA PAULA BRENTANI
hcfmusp.contributor.author-fmusphcEMMANUEL DIAS NETO
hcfmusp.description.articlenumbere21022
hcfmusp.description.issue6
hcfmusp.description.volume6
hcfmusp.origemWOS
hcfmusp.origem.pubmed21731642
hcfmusp.origem.scopus2-s2.0-79959423230
hcfmusp.origem.wosWOS:000292033700029
hcfmusp.publisher.citySAN FRANCISCO
hcfmusp.publisher.countryUSA
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