Pan-cancer analysis of expressed somatic nucleotide variants in long intergenic non-coding RNA.
Pac Symp Biocomput
; 23: 512-523, 2018.
Article
em En
| MEDLINE
| ID: mdl-29218910
ABSTRACT
Long intergenic non-coding RNAs have been shown to play important roles in cancer. However, because lincRNAs are a relatively new class of RNAs compared to protein-coding mRNAs, the mutational landscape of lincRNAs has not been as extensively studied. Here we characterize expressed somatic nucleotide variants within lincRNAs using 12 cancer RNA-Seq datasets in TCGA. We build machine-learning models to discriminate somatic variants from germline variants within lincRNA regions (AUC 0.987). We build another model to differentiate lincRNA somatic mutations from background regions (AUC 0.72) and find several molecular features that are strongly associated with lincRNA mutations, including copy number variation, conservation, substitution type and histone marker features.
Texto completo:
1
Base de dados:
MEDLINE
Assunto principal:
RNA Neoplásico
/
RNA Longo não Codificante
/
Neoplasias
Tipo de estudo:
Risk_factors_studies
Limite:
Female
/
Humans
/
Male
Idioma:
En
Revista:
Pac Symp Biocomput
Assunto da revista:
BIOTECNOLOGIA
/
INFORMATICA MEDICA
Ano de publicação:
2018
Tipo de documento:
Article
País de afiliação:
Estados Unidos