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Updated: Aug 26, 2025

Measuring mRNA Levels Over Time During the Yeast S. cerevisiae Hypoxic Response

Measuring mRNA Levels Over Time During the Yeast S. cerevisiae Hypoxic Response

Published on: August 10, 2017

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

Yoko Ono¹, Hidemasa Bono^2,3

¹Laboratory of Genome Informatics, Graduate School of Integrated Sciences for Life, Hiroshima University, Higashihiroshima, Japan.

Life Science Alliance

|October 10, 2022

Summary

This summary is machine-generated.

This study introduces a data-driven method to analyze gene expression, focusing on hypoxia

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Last Updated: Aug 26, 2025

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Analysis of Global RNA Synthesis at the Single Cell Level following Hypoxia

Analysis of Global RNA Synthesis at the Single Cell Level following Hypoxia

Published on: May 13, 2014

Area of Science:

Transcriptomics
Gene Expression Analysis
Noncoding RNA Biology

Background:

Gene expression studies often incorporate external data, introducing bias.
A data-driven approach can overcome limitations of traditional gene expression analysis.
The FANTOM CAGE-Associated Transcriptome project offers a comprehensive human transcriptome resource.

Purpose of the Study:

To evaluate the differential response of various transcripts to hypoxia.
To assess the role of noncoding RNA (ncRNA) metabolism under hypoxic conditions.
To explore the relationship between sense-antisense transcripts from the same locus.

Main Methods:

Utilized a data-driven meta-analysis of transcriptome sequencing data.
Determined hypoxia responsiveness scores for different transcripts.
Performed enrichment analysis on genes associated with ncRNA metabolism.

Main Results:

Hypoxia significantly impacts gene expression, down-regulating ncRNA metabolism.
Genes involved in ribosomal RNA processing were notably down-regulated by hypoxia.
The study successfully analyzed both coding and noncoding RNAs, including sense-antisense transcripts.

Conclusions:

A data-driven approach enables unbiased transcriptome analysis.
Hypoxia specifically affects ncRNA metabolism and ribosomal RNA processing.
Findings facilitate functional annotation of diverse transcripts, including ncRNAs.