Revealing global regulatory features of mammalian alternative splicing using a quantitative microarray platform
Open accessAbstract
We describe the application of a microarray platform, which combines information from exon body and splice-junction probes, to perform a quantitative analysis of tissue-specific alternative splicing (AS) for thousands of exons in mammalian cells. Through this system, we have analyzed global features of AS in major mouse tissues. The results provide numerous inferences for the functions of tissue-specific AS, insights into how the evolutionary history of exons can impact on their inclusion levels, and also information on how global regulatory properties of AS define tissue type. Like global transcription profiles, global AS profiles reflect tissue identity. Interestingly, we find that transcription and AS act independently on different sets of genes in order to define tissue-specific expression profiles. These results demonstrate the utility of our quantitative microarray platform and data for revealing important global regulatory features of AS.
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There is little overlap (8.5%) between genes with neural-regulated alternative splicing and mRNA expression, although these subsets are highly enriched in overlapping Gene Ontology terms (40% in common).
“Consistent with previous results (Fagnani et al., 2007; Pan et al., 2004), there is little overlap (8.5%) between genes with neural-regulated AS and mRNA expression, although these subsets of genes are highly enriched in overlapping GO terms (40% in common; Figure S1).”
From A Highly Conserved Program of Neuronal Microexons Is Misregulated in Autistic Brains (2014) · cites this paper as Pan et al., 2004
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References 53 · Cited by 323
- Authors
- Pan, Q., Shai, O., Misquitta, C., Zhang, W., Saltzman, A. L., Mohammad, N., Babak, T., Siu, H., Hughes, T. R., Morris, Q. D., Frey, B. J., & Blencowe, B. J.
- Affiliations
- University of Toronto (CA)
- Corresponding author
- Blencowe, Benjamin J.
- ORCID
- Venue
- Molecular Cell
- Publisher
- Elsevier BV
- Published
- 2004-12
- Volume
- 16
- Issue
- 6
- Pages
- 929-941
- ISSN
- 1097-2765 (ISSN-L)
- OpenAlex
- W1986113553
- Cited by
- 323
- References
- 53
- Citations by year
- 2026: 3 · 2025: 4 · 2024: 4 · 2023: 6 · 2022: 3 · 2021: 6 · 2020: 6 · 2019: 4 · 2018: 2 · 2017: 4 · 2016: 4 · 2015: 12 · 2014: 12 · 2013: 10 · 2012: 19
- FWCI
- 12.19
- Type
- journal article
- Language
- en
- Open access
- bronze
- doi.org
- Licence
- Locations
- Molecular Cell (publishedVersion)
- PubMed (publishedVersion)
- Topics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › RNA Research and Splicing
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Cancer Research › Cancer-related molecular mechanisms research
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › RNA regulation and disease
- Keywords
- alternative splicing, tissue-specific splicing, exon inclusion, mouse tissues, tissue identity, exon evolution
- MeSH terms
- Animals, Brain, Gene Expression Regulation, Male, Organ Specificity, RNA, Testis, Alternative Splicing, Evolution, Molecular, Oligonucleotide Array Sequence Analysis, Mice
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