Identification of Splice Variants and Isoforms in Transcriptomics and Proteomics Article Swipe
Taojunfeng Su
,
Michael A. R. Hollas
,
Ryan T. Fellers
,
Neil L. Kelleher
·
YOU?
·
· 2023
· Open Access
·
· DOI: https://doi.org/10.1146/annurev-biodatasci-020722-044021
YOU?
·
· 2023
· Open Access
·
· DOI: https://doi.org/10.1146/annurev-biodatasci-020722-044021
Alternative splicing is pivotal to the regulation of gene expression and protein diversity in eukaryotic cells. The detection of alternative splicing events requires specific omics technologies. Although short-read RNA sequencing has successfully supported a plethora of investigations on alternative splicing, the emerging technologies of long-read RNA sequencing and top-down mass spectrometry open new opportunities to identify alternative splicing and protein isoforms with less ambiguity. Here, we summarize improvements in short-read RNA sequencing for alternative splicing analysis, including percent splicing index estimation and differential analysis. We also review the computational methods used in top-down proteomics analysis regarding proteoform identification, including the construction of databases of protein isoforms and statistical analyses of search results. While many improvements in sequencing and computational methods will result from emerging technologies, there should be future endeavors to increase the effectiveness, integration, and proteome coverage of alternative splicing events.
Related Topics
Concepts
Alternative splicing
Computational biology
Proteome
RNA splicing
Proteomics
Biology
Identification (biology)
Protein isoform
RNA-Seq
RNA
Transcriptome
Bioinformatics
Gene
Gene isoform
Genetics
Gene expression
Botany
Metadata
- Type
- review
- Language
- en
- Landing Page
- https://doi.org/10.1146/annurev-biodatasci-020722-044021
- https://www.annualreviews.org/doi/pdf/10.1146/annurev-biodatasci-020722-044021
- OA Status
- hybrid
- Cited By
- 27
- References
- 142
- Related Works
- 10
- OpenAlex ID
- https://openalex.org/W4385737657
All OpenAlex metadata
Raw OpenAlex JSON
- OpenAlex ID
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https://openalex.org/W4385737657Canonical identifier for this work in OpenAlex
- DOI
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https://doi.org/10.1146/annurev-biodatasci-020722-044021Digital Object Identifier
- Title
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Identification of Splice Variants and Isoforms in Transcriptomics and ProteomicsWork title
- Type
-
reviewOpenAlex work type
- Language
-
enPrimary language
- Publication year
-
2023Year of publication
- Publication date
-
2023-08-10Full publication date if available
- Authors
-
Taojunfeng Su, Michael A. R. Hollas, Ryan T. Fellers, Neil L. KelleherList of authors in order
- Landing page
-
https://doi.org/10.1146/annurev-biodatasci-020722-044021Publisher landing page
- PDF URL
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https://www.annualreviews.org/doi/pdf/10.1146/annurev-biodatasci-020722-044021Direct link to full text PDF
- Open access
-
YesWhether a free full text is available
- OA status
-
hybridOpen access status per OpenAlex
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https://www.annualreviews.org/doi/pdf/10.1146/annurev-biodatasci-020722-044021Direct OA link when available
- Concepts
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Alternative splicing, Computational biology, Proteome, RNA splicing, Proteomics, Biology, Identification (biology), Protein isoform, RNA-Seq, RNA, Transcriptome, Bioinformatics, Gene, Gene isoform, Genetics, Gene expression, BotanyTop concepts (fields/topics) attached by OpenAlex
- Cited by
-
27Total citation count in OpenAlex
- Citations by year (recent)
-
2025: 13, 2024: 10, 2023: 4Per-year citation counts (last 5 years)
- References (count)
-
142Number of works referenced by this work
- Related works (count)
-
10Other works algorithmically related by OpenAlex
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