| Literature DB >> 33420318 |
Linda Kvastad1, Konstantin Carlberg1, Ludvig Larsson1, Eva Gracia Villacampa1, Alexander Stuckey1, Linnea Stenbeck1, Annelie Mollbrink1, Margherita Zamboni2, Jens Peter Magnusson2,3, Elisa Basmaci4,5, Alia Shamikh4,5, Gabriela Prochazka4,5, Anna-Lena Schaupp6, Åke Borg7, Lars Fugger6, Monica Nistér4,5, Joakim Lundeberg8.
Abstract
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.Entities:
Year: 2021 PMID： 33420318 PMCID： PMC7794352 DOI： 10.1038/s42003-020-01573-1
Source DB: PubMed Journal: Commun Biol ISSN： 2399-3642