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Novel lncRNAs Co-Expression Networks Identifies LINC00504 with Oncogenic Role in Luminal A Breast Cancer Cells.
Mathias, Carolina; Groeneveld, Clarice S; Trefflich, Sheyla; Zambalde, Erika P; Lima, Rubens S; Urban, Cícero A; Prado, Karin B; Ribeiro, Enilze M S F; Castro, Mauro A A; Gradia, Daniela F; de Oliveira, Jaqueline C.
Affiliation
  • Mathias C; Post-Graduation Program in Genetics, Department of Genetics, Federal University of Parana, Curitiba 81530-900, PR, Brazil.
  • Groeneveld CS; Cartes d'Identité des Tumeurs Program, Ligue Nationale Contre le Cancer, 75013 Paris, France.
  • Trefflich S; Oncologie Moleculaire, Institut Curie, CNRS, UMR144, Equipe Labellisée Ligue Contre le Cancer, 75005 Paris, France.
  • Zambalde EP; Bioinformatics and Systems Biology Laboratory, Polytechnic Center, Federal University of Parana (UFPR), Curitiba 81520-260, PR, Brazil.
  • Lima RS; Post-Graduation Program in Genetics, Department of Genetics, Federal University of Parana, Curitiba 81530-900, PR, Brazil.
  • Urban CA; Breast Disease Center, Hospital Nossa Senhora das Graças, Curitiba 80810040, PR, Brazil.
  • Prado KB; Breast Disease Center, Hospital Nossa Senhora das Graças, Curitiba 80810040, PR, Brazil.
  • Ribeiro EMSF; Post-Graduation Program in Genetics, Department of Genetics, Federal University of Parana, Curitiba 81530-900, PR, Brazil.
  • Castro MAA; Post-Graduation Program in Genetics, Department of Genetics, Federal University of Parana, Curitiba 81530-900, PR, Brazil.
  • Gradia DF; Bioinformatics and Systems Biology Laboratory, Polytechnic Center, Federal University of Parana (UFPR), Curitiba 81520-260, PR, Brazil.
  • de Oliveira JC; Post-Graduation Program in Genetics, Department of Genetics, Federal University of Parana, Curitiba 81530-900, PR, Brazil.
Int J Mol Sci ; 22(5)2021 Feb 28.
Article in En | MEDLINE | ID: mdl-33670895
ABSTRACT
Long non-coding RNAs (lncRNAs) are functional transcripts with more than 200 nucleotides. These molecules exhibit great regulatory capacity and may act at different levels of gene expression regulation. Despite this regulatory versatility, the biology of these molecules is still poorly understood. Computational approaches are being increasingly used to elucidate biological mechanisms in which these lncRNAs may be involved. Co-expression networks can serve as great allies in elucidating the possible regulatory contexts in which these molecules are involved. Herein, we propose the use of the pipeline deposited in the RTN package to build lncRNAs co-expression networks using TCGA breast cancer (BC) cohort data. Worldwide, BC is the most common cancer in women and has great molecular heterogeneity. We identified an enriched co-expression network for the validation of relevant cell processes in the context of BC, including LINC00504. This lncRNA has increased expression in luminal subtype A samples, and is associated with prognosis in basal-like subtype. Silencing this lncRNA in luminal A cell lines resulted in decreased cell viability and colony formation. These results highlight the relevance of the proposed method for the identification of lncRNAs in specific biological contexts.
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Full text: 1 Collection: 01-internacional Database: MEDLINE Main subject: Breast Neoplasms / Gene Regulatory Networks / RNA, Long Noncoding Type of study: Diagnostic_studies / Prognostic_studies Limits: Female / Humans Language: En Journal: Int J Mol Sci Year: 2021 Document type: Article Affiliation country: Brasil

Full text: 1 Collection: 01-internacional Database: MEDLINE Main subject: Breast Neoplasms / Gene Regulatory Networks / RNA, Long Noncoding Type of study: Diagnostic_studies / Prognostic_studies Limits: Female / Humans Language: En Journal: Int J Mol Sci Year: 2021 Document type: Article Affiliation country: Brasil