Metabolomic and Transcriptomic data - in vitro ependymoma +/- serum starvation
Description
The integration of untargeted metabolomics and transcriptomics from the same population of cells or tissue enhances the confidence in the identified metabolic pathways and understanding of the enzyme–metabolite relationship. Here, we optimised a simultaneous extraction method of me-tabolites/lipids and RNA from ependymoma cells (BXD-1425).
Two existing single extraction and four dual extraction protocols were critically assessed based on their practical reproducibility, the suitability of the metabolite extraction protocol to human cancer cells and their RNA recovery. The effectiveness of the optimised method was verified by testing the sensitivity to a) discriminate both subtle and profound altera-tions in transcription and metabolism in an acute serum starvation period in a human ependymoma cell line;
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Subjects
- Brain -- Tumors
- Brain Neoplasms
- Neoplasms -- metabolism
- Metabolomics
- Metabolomics, transcriptomics, ependymoma
- Biological Sciences
- Q Science
Divisions
- University of Nottingham, UK Campus::Faculty of Medicine and Health Sciences::School of Medicine
Research institutes and centres
- University of Nottingham, UK Campus::Children's Brain Tumour Research Centre
Deposit date
2021-04-20Data type
Metabolomics (liquid-chromatography mass spectrometry-based) and transcriptomics (gene expression microarray-based)Contributors
- Woodward, Alison
- Pandele, Alina
Funders
- Other
- Stoneygate Trust
Grant number
- CARO/SS/2016/CC1
Collection dates
- 2018-2020
Coverage
- Nottingham, UK
- 2018-2020
Data collection method
InstrumentsLegal and ethical issues
None (data generated from in vitro cell lines)Resource languages
- en
Copyright
- Ruman Rahman