Genomic and transcriptomic characterization of the human glioblastoma cell line AHOL1

Detalhes bibliográficos
Autor(a) principal: Ferreira,W.A.S.
Data de Publicação: 2021
Outros Autores: Amorim,C.K.N., Burbano,R.R., Villacis,R.A.R., Marchi,F.A., Medina,T.S., Lima,M.M.C. de, Oliveira,E.H.C. de
Tipo de documento: Artigo
Idioma: eng
Título da fonte: Brazilian Journal of Medical and Biological Research
Texto Completo: http://old.scielo.br/scielo.php?script=sci_arttext&pid=S0100-879X2021000300603
Resumo: Cancer cell lines are widely used as in vitro models of tumorigenesis, facilitating fundamental discoveries in cancer biology and translational medicine. Currently, there are few options for glioblastoma (GBM) treatment and limited in vitro models with accurate genomic and transcriptomic characterization. Here, a detailed characterization of a new GBM cell line, namely AHOL1, was conducted in order to fully characterize its molecular composition based on its karyotype, copy number alteration (CNA), and transcriptome profiling, followed by the validation of key elements associated with GBM tumorigenesis. Large numbers of CNAs and differentially expressed genes (DEGs) were identified. CNAs were distributed throughout the genome, including gains at Xq11.1-q28, Xp22.33-p11.1, Xq21.1-q21.33, 4p15.1-p14, 8q23.2-q23.3 and losses at Yq11.21-q12, Yp11.31-p11.2, and 15q11.1-q11.2 positions. Nine druggable genes were identified, including HCRTR2, ETV1, PTPRD, PRKX, STS, RPS6KA6, ZFY, USP9Y, and KDM5D. By integrating DEGs and CNAs, we identified 57 overlapping genes enriched in fourteen pathways. Altered expression of several cancer-related candidates found in the DEGs-CNA dataset was confirmed by RT-qPCR. Taken together, this first comprehensive genomic and transcriptomic landscape of AHOL1 provides unique resources for further studies and identifies several druggable targets that may be useful for therapeutics and biologic and molecular investigation of GBM.
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spelling Genomic and transcriptomic characterization of the human glioblastoma cell line AHOL1Array-comparative genomic hybridizationGliomasTranscriptomicsBrain tumorsCell lineGlioblastomaCancer cell lines are widely used as in vitro models of tumorigenesis, facilitating fundamental discoveries in cancer biology and translational medicine. Currently, there are few options for glioblastoma (GBM) treatment and limited in vitro models with accurate genomic and transcriptomic characterization. Here, a detailed characterization of a new GBM cell line, namely AHOL1, was conducted in order to fully characterize its molecular composition based on its karyotype, copy number alteration (CNA), and transcriptome profiling, followed by the validation of key elements associated with GBM tumorigenesis. Large numbers of CNAs and differentially expressed genes (DEGs) were identified. CNAs were distributed throughout the genome, including gains at Xq11.1-q28, Xp22.33-p11.1, Xq21.1-q21.33, 4p15.1-p14, 8q23.2-q23.3 and losses at Yq11.21-q12, Yp11.31-p11.2, and 15q11.1-q11.2 positions. Nine druggable genes were identified, including HCRTR2, ETV1, PTPRD, PRKX, STS, RPS6KA6, ZFY, USP9Y, and KDM5D. By integrating DEGs and CNAs, we identified 57 overlapping genes enriched in fourteen pathways. Altered expression of several cancer-related candidates found in the DEGs-CNA dataset was confirmed by RT-qPCR. Taken together, this first comprehensive genomic and transcriptomic landscape of AHOL1 provides unique resources for further studies and identifies several druggable targets that may be useful for therapeutics and biologic and molecular investigation of GBM.Associação Brasileira de Divulgação Científica2021-01-01info:eu-repo/semantics/articleinfo:eu-repo/semantics/publishedVersiontext/htmlhttp://old.scielo.br/scielo.php?script=sci_arttext&pid=S0100-879X2021000300603Brazilian Journal of Medical and Biological Research v.54 n.3 2021reponame:Brazilian Journal of Medical and Biological Researchinstname:Associação Brasileira de Divulgação Científica (ABDC)instacron:ABDC10.1590/1414-431x20209571info:eu-repo/semantics/openAccessFerreira,W.A.S.Amorim,C.K.N.Burbano,R.R.Villacis,R.A.R.Marchi,F.A.Medina,T.S.Lima,M.M.C. deOliveira,E.H.C. deeng2021-01-13T00:00:00Zoai:scielo:S0100-879X2021000300603Revistahttps://www.bjournal.org/https://old.scielo.br/oai/scielo-oai.phpbjournal@terra.com.br||bjournal@terra.com.br1414-431X0100-879Xopendoar:2021-01-13T00:00Brazilian Journal of Medical and Biological Research - Associação Brasileira de Divulgação Científica (ABDC)false
dc.title.none.fl_str_mv Genomic and transcriptomic characterization of the human glioblastoma cell line AHOL1
title Genomic and transcriptomic characterization of the human glioblastoma cell line AHOL1
spellingShingle Genomic and transcriptomic characterization of the human glioblastoma cell line AHOL1
Ferreira,W.A.S.
Array-comparative genomic hybridization
Gliomas
Transcriptomics
Brain tumors
Cell line
Glioblastoma
title_short Genomic and transcriptomic characterization of the human glioblastoma cell line AHOL1
title_full Genomic and transcriptomic characterization of the human glioblastoma cell line AHOL1
title_fullStr Genomic and transcriptomic characterization of the human glioblastoma cell line AHOL1
title_full_unstemmed Genomic and transcriptomic characterization of the human glioblastoma cell line AHOL1
title_sort Genomic and transcriptomic characterization of the human glioblastoma cell line AHOL1
author Ferreira,W.A.S.
author_facet Ferreira,W.A.S.
Amorim,C.K.N.
Burbano,R.R.
Villacis,R.A.R.
Marchi,F.A.
Medina,T.S.
Lima,M.M.C. de
Oliveira,E.H.C. de
author_role author
author2 Amorim,C.K.N.
Burbano,R.R.
Villacis,R.A.R.
Marchi,F.A.
Medina,T.S.
Lima,M.M.C. de
Oliveira,E.H.C. de
author2_role author
author
author
author
author
author
author
dc.contributor.author.fl_str_mv Ferreira,W.A.S.
Amorim,C.K.N.
Burbano,R.R.
Villacis,R.A.R.
Marchi,F.A.
Medina,T.S.
Lima,M.M.C. de
Oliveira,E.H.C. de
dc.subject.por.fl_str_mv Array-comparative genomic hybridization
Gliomas
Transcriptomics
Brain tumors
Cell line
Glioblastoma
topic Array-comparative genomic hybridization
Gliomas
Transcriptomics
Brain tumors
Cell line
Glioblastoma
description Cancer cell lines are widely used as in vitro models of tumorigenesis, facilitating fundamental discoveries in cancer biology and translational medicine. Currently, there are few options for glioblastoma (GBM) treatment and limited in vitro models with accurate genomic and transcriptomic characterization. Here, a detailed characterization of a new GBM cell line, namely AHOL1, was conducted in order to fully characterize its molecular composition based on its karyotype, copy number alteration (CNA), and transcriptome profiling, followed by the validation of key elements associated with GBM tumorigenesis. Large numbers of CNAs and differentially expressed genes (DEGs) were identified. CNAs were distributed throughout the genome, including gains at Xq11.1-q28, Xp22.33-p11.1, Xq21.1-q21.33, 4p15.1-p14, 8q23.2-q23.3 and losses at Yq11.21-q12, Yp11.31-p11.2, and 15q11.1-q11.2 positions. Nine druggable genes were identified, including HCRTR2, ETV1, PTPRD, PRKX, STS, RPS6KA6, ZFY, USP9Y, and KDM5D. By integrating DEGs and CNAs, we identified 57 overlapping genes enriched in fourteen pathways. Altered expression of several cancer-related candidates found in the DEGs-CNA dataset was confirmed by RT-qPCR. Taken together, this first comprehensive genomic and transcriptomic landscape of AHOL1 provides unique resources for further studies and identifies several druggable targets that may be useful for therapeutics and biologic and molecular investigation of GBM.
publishDate 2021
dc.date.none.fl_str_mv 2021-01-01
dc.type.driver.fl_str_mv info:eu-repo/semantics/article
dc.type.status.fl_str_mv info:eu-repo/semantics/publishedVersion
format article
status_str publishedVersion
dc.identifier.uri.fl_str_mv http://old.scielo.br/scielo.php?script=sci_arttext&pid=S0100-879X2021000300603
url http://old.scielo.br/scielo.php?script=sci_arttext&pid=S0100-879X2021000300603
dc.language.iso.fl_str_mv eng
language eng
dc.relation.none.fl_str_mv 10.1590/1414-431x20209571
dc.rights.driver.fl_str_mv info:eu-repo/semantics/openAccess
eu_rights_str_mv openAccess
dc.format.none.fl_str_mv text/html
dc.publisher.none.fl_str_mv Associação Brasileira de Divulgação Científica
publisher.none.fl_str_mv Associação Brasileira de Divulgação Científica
dc.source.none.fl_str_mv Brazilian Journal of Medical and Biological Research v.54 n.3 2021
reponame:Brazilian Journal of Medical and Biological Research
instname:Associação Brasileira de Divulgação Científica (ABDC)
instacron:ABDC
instname_str Associação Brasileira de Divulgação Científica (ABDC)
instacron_str ABDC
institution ABDC
reponame_str Brazilian Journal of Medical and Biological Research
collection Brazilian Journal of Medical and Biological Research
repository.name.fl_str_mv Brazilian Journal of Medical and Biological Research - Associação Brasileira de Divulgação Científica (ABDC)
repository.mail.fl_str_mv bjournal@terra.com.br||bjournal@terra.com.br
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