Comparison of Oxidative and Hypoxic Stress Responsive Genes from Meta-Analysis of Public Transcriptomes

Analysis of RNA-sequencing (RNA-seq) data is an effective means to analyze the gene expression levels under specific conditions and discover new biological knowledge. More than 74,000 experimental series with RNA-seq have been stored in public databases as of 20 October 2021. Since this huge amount...

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Bibliographic Details
Published in:Biomedicines 2021-12, Vol.9 (12), p.1830
Main Authors: Suzuki, Takayuki, Ono, Yoko, Bono, Hidemasa
Format: Article
Language:English
Subjects:
Archives & records
Automation
Cell cycle
Datasets
Gene expression
Homeostasis
Hydrogen peroxide
Hypotheses
Hypoxia
Information retrieval
Investigations
Meta-analysis
Metadata
Oxidative stress
Ribonucleic acid
RNA
RNA-seq
Transcriptomes
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Summary:Analysis of RNA-sequencing (RNA-seq) data is an effective means to analyze the gene expression levels under specific conditions and discover new biological knowledge. More than 74,000 experimental series with RNA-seq have been stored in public databases as of 20 October 2021. Since this huge amount of expression data accumulated from past studies is a promising source of new biological insights, we focused on a meta-analysis of 1783 runs of RNA-seq data under the conditions of two types of stressors: oxidative stress (OS) and hypoxia. The collected RNA-seq data of OS were organized as the OS dataset to retrieve and analyze differentially expressed genes (DEGs). The OS-induced DEGs were compared with the hypoxia-induced DEGs retrieved from a previous study. The results from the meta-analysis of OS transcriptomes revealed two genes, and , which were particularly downregulated, suggesting a relationship between OS and zinc homeostasis. The comparison between meta-analysis of OS and hypoxia showed that several genes were differentially expressed under both stress conditions, and it was inferred that the downregulation of cell cycle-related genes is a mutual biological process in both OS and hypoxia.
ISSN:2227-9059
2227-9059
DOI:10.3390/biomedicines9121830