Determining Alternative Protein Isoform Expression Using RNA Sequencing and Mass Spectrometry.
Alternative Splicing
/ genetics
Base Sequence
/ genetics
Gene Expression
/ genetics
Gene Expression Profiling
/ methods
Humans
Mass Spectrometry
/ methods
Protein Isoforms
/ analysis
Proteome
/ genetics
Proteomics
/ methods
RNA-Seq
/ methods
Sequence Analysis, RNA
/ methods
Tandem Mass Spectrometry
/ methods
Transcriptome
/ genetics
Journal
STAR protocols
ISSN: 2666-1667
Titre abrégé: STAR Protoc
Pays: United States
ID NLM: 101769501
Informations de publication
Date de publication:
18 12 2020
18 12 2020
Historique:
entrez:
30
12
2020
pubmed:
31
12
2020
medline:
31
12
2020
Statut:
epublish
Résumé
Alternative splicing greatly expands the coding capacity of the human genome, but how many alternative transcripts are translated as proteins or carry functional importance remains unknown and awaits experimental verification. Here, we describe a protocol that combines transcriptomics (RNA-seq) and proteomics (mass spectrometry [MS]) analyses to identify alternative isoforms in proteomes. This workflow is applicable to custom-generated RNA-seq and MS data from matching samples, as well as the reanalysis of existing transcriptomics and proteomics datasets in public repositories. For complete details on the use and execution of this protocol, please refer to Lau et al. (2019).
Identifiants
pubmed: 33377032
doi: 10.1016/j.xpro.2020.100138
pii: S2666-1667(20)30125-8
pmc: PMC7757315
doi:
Substances chimiques
Protein Isoforms
0
Proteome
0
Types de publication
Journal Article
Research Support, N.I.H., Extramural
Research Support, Non-U.S. Gov't
Langues
eng
Pagination
100138Subventions
Organisme : NHLBI NIH HHS
ID : R00 HL127302
Pays : United States
Organisme : NHLBI NIH HHS
ID : T32 HL007822
Pays : United States
Organisme : NHLBI NIH HHS
ID : R01 HL141278
Pays : United States
Organisme : NHLBI NIH HHS
ID : R21 HL150456
Pays : United States
Organisme : NHLBI NIH HHS
ID : F32 HL149191
Pays : United States
Organisme : NHLBI NIH HHS
ID : R00 HL144829
Pays : United States
Informations de copyright
© 2020 The Authors.
Déclaration de conflit d'intérêts
The authors declare no competing interests.
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