The spatial RNA integrity number assay for in situ evaluation of transcriptome quality.
Journal
Communications biology
ISSN: 2399-3642
Titre abrégé: Commun Biol
Pays: England
ID NLM: 101719179
Informations de publication
Date de publication:
08 01 2021
08 01 2021
Historique:
received:
21
01
2020
accepted:
11
11
2020
entrez:
9
1
2021
pubmed:
10
1
2021
medline:
3
7
2021
Statut:
epublish
Résumé
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.
Identifiants
pubmed: 33420318
doi: 10.1038/s42003-020-01573-1
pii: 10.1038/s42003-020-01573-1
pmc: PMC7794352
doi:
Substances chimiques
RNA, Messenger
0
Types de publication
Evaluation Study
Journal Article
Research Support, Non-U.S. Gov't
Langues
eng
Sous-ensembles de citation
IM
Pagination
57Subventions
Organisme : Wellcome Trust
Pays : United Kingdom
Organisme : Wellcome Trust
ID : 100308/Z/12/Z
Pays : United Kingdom
Organisme : Medical Research Council
ID : MC_UU_12010/3
Pays : United Kingdom
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