Exploratory meta-analysis of hypoxic transcriptomes using a precise transcript reference sequence set.

ABSTRACT: Gene expression studies are intrinsically biased, with many studies influenced by concomitant information such as gene-disease associations. This limitation can be overcome using a data-driven analysis approach without relying on ancillary information. The FANTOM CAGE-Associated Transcriptome project provides a comprehensive meta-assembly of the human transcriptome using coding and noncoding genes. Hypoxia strongly influences gene expression; in addition, noncoding RNA (ncRNA) metabolism is down-regulated in response to hypoxic stimuli. We evaluated the differential response of various transcripts to hypoxia by determining their hypoxia responsiveness scores. Enrichment analysis revealed that several genes associated with ncRNA metabolism, particularly those involved in ribosomal RNA proce

SUBMITTER: Ono Y 

PROVIDER: S-EPMC9553900 | biostudies-literature | 2023 Jan

REPOSITORIES: biostudies-literature