LncGSEA: a versatile tool to infer lncRNA associated pathways from large-scale cancer transcriptome sequencing data.

ABSTRACT:

Background

Long non-coding RNAs (lncRNAs) are a growing focus in cancer research. Deciphering pathways influenced by lncRNAs is important to understand their role in cancer. Although knock-down or overexpression of lncRNAs followed by gene expression profiling in cancer cell lines are established approaches to address this problem, these experimental data are not available for a majority of the annotated lncRNAs.

Results

As a surrogate, we present lncGSEA, a convenient tool to predict the lncRNA associated pathways through Gene Set Enrichment Analysis of gene expression profiles from large-scale cancer patient samples. We demonstrate that lncGSEA is able to recapitulate lncRNA associated pathways supported by literature and experimental validations in multiple cancer types.<

SUBMITTER: Ren Y 

PROVIDER: S-EPMC8314497 | biostudies-literature | 2021 Jul

REPOSITORIES: biostudies-literature