Protocol for generation of a time-resolved cellular interactome during tissue remodeling in adult mice.
Bioinformatics
Cell Biology
Cell isolation
Computer sciences
Flow Cytometry/Mass Cytometry
Molecular Biology
RNAseq
Sequence analysis
Sequencing
Stem Cells
Journal
STAR protocols
ISSN: 2666-1667
Titre abrégé: STAR Protoc
Pays: United States
ID NLM: 101769501
Informations de publication
Date de publication:
11 Oct 2023
11 Oct 2023
Historique:
received:
05
07
2023
revised:
25
08
2023
accepted:
22
09
2023
medline:
13
10
2023
pubmed:
13
10
2023
entrez:
13
10
2023
Statut:
aheadofprint
Résumé
Efficient skeletal muscle regeneration necessitates fine-tuned coordination among multiple cell types through an intricate network of intercellular communication. We present a protocol for generation of a time-resolved cellular interactome during tissue remodeling. We describe steps for isolating distinct cell populations from skeletal muscle of adult mice after acute damage and extracting RNA from purified cells prior to the generation of RNA sequencing data. We then detail procedures for generating and deciphering a time- and lineage-resolved model of intercellular crosstalk. For complete details on the use and execution of this protocol, please refer to Groppa et al. (2023).
Identifiants
pubmed: 37831606
pii: S2666-1667(23)00605-6
doi: 10.1016/j.xpro.2023.102638
pmc: PMC10583169
pii:
doi:
Types de publication
Journal Article
Langues
eng
Sous-ensembles de citation
IM
Pagination
102638Informations de copyright
Copyright © 2023 The Authors. Published by Elsevier Inc. All rights reserved.
Déclaration de conflit d'intérêts
Declaration of interests The authors declare no competing interests.
Références
Nat Cell Biol. 2010 Feb;12(2):153-63
pubmed: 20081841
Bioinformatics. 2019 Apr 1;35(7):1258-1260
pubmed: 30184047
Cell Stem Cell. 2008 Sep 11;3(3):301-13
pubmed: 18786417
Cell Rep. 2023 Feb 28;42(2):112051
pubmed: 36729831
Nat Med. 2015 Jul;21(7):786-94
pubmed: 26053624
Nat Biotechnol. 2014 Sep;32(9):896-902
pubmed: 25150836
BMC Bioinformatics. 2014;15 Suppl 5:S3
pubmed: 25077979
Database (Oxford). 2011 Jul 23;2011:bar030
pubmed: 21785142
Innovation (Camb). 2021 Jul 01;2(3):100141
pubmed: 34557778
Cell Rep. 2016 Mar 29;14(12):3001-18
pubmed: 27009580
Nat Genet. 2016 Aug;48(8):838-47
pubmed: 27322546
OMICS. 2012 May;16(5):284-7
pubmed: 22455463
Bioinformatics. 2010 Jan 1;26(1):139-40
pubmed: 19910308
BMC Bioinformatics. 2012 Jan 31;13:20
pubmed: 22292714
Nucleic Acids Res. 2018 Aug 21;46(14):7022-7039
pubmed: 29893918