Åke Borg
Principal investigator
The spatial RNA integrity number assay for in situ evaluation of transcriptome quality
Author
Summary, in English
The RNA integrity number (RIN) is a frequently used quality metric to assess the completeness of rRNA, as a proxy for the corresponding mRNA in a tissue. Current methods operate at bulk resolution and provide a single average estimate for the whole sample. Spatial transcriptomics technologies have emerged and shown their value by placing gene expression into a tissue context, resulting in transcriptional information from all tissue regions. Thus, the ability to estimate RNA quality in situ has become of utmost importance to overcome the limitation with a bulk rRNA measurement. Here we show a new tool, the spatial RNA integrity number (sRIN) assay, to assess the rRNA completeness in a tissue wide manner at cellular resolution. We demonstrate the use of sRIN to identify spatial variation in tissue quality prior to more comprehensive spatial transcriptomics workflows.
Department/s
- LUCC: Lund University Cancer Centre
- Familial Breast Cancer
Publishing year
2021
Language
English
Publication/Series
Communications Biology
Volume
4
Issue
1
Document type
Journal article
Publisher
Nature Publishing Group
Topic
- Biochemistry and Molecular Biology
- Cell and Molecular Biology
Status
Published
Research group
- Familial Breast Cancer
ISBN/ISSN/Other
- ISSN: 2399-3642