Current-generation high-throughput sequencing: deepening insights into mammalian transcriptomes
Open accessAbstract
Recent papers have described the first application of high-throughput sequencing (HTS) technologies to the characterization of transcriptomes. These studies emphasize the tremendous power of this new technology, in terms of both profiling coverage and quantitative accuracy. Initial discoveries include the detection of substantial new transcript complexity, the elucidation of binding maps and regulatory properties of RNA-binding proteins, and new insights into the links between different steps in pre-mRNA processing. We review these findings, focusing on results from profiling mammalian transcriptomes. The strengths and limitations of HTS relative to microarray profiling are discussed. We also consider how future advances in HTS technology are likely to transform our understanding of integrated cellular networks operating at the RNA level.
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Whole genome analyses brought a new appreciation of the pervasiveness and regulatory reach of alternative splicing in metazoan organisms.
“The advent of whole genome analyses10,12,188,189 brought a new appreciation of its pervasiveness and regulatory reach in metazoan organisms190,191.”
From The neurogenetics of alternative splicing (2016) · cites this paper as [188]
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Self-citation
- Authors
- Blencowe, B. J., Ahmad, S., & Lee, L. J.
- Affiliations
- University of Toronto (CA)
- Venue
- Genes & Development
- Publisher
- Cold Spring Harbor Laboratory
- Published
- 2009-06-15
- Volume
- 23
- Issue
- 12
- Pages
- 1379-1386
- ISSN
- 0890-9369 (ISSN-L)
- 1549-5477
- OpenAlex
- W2110103300
- Cited by
- 168
- References
- 55
- Citations by year
- 2026: 2 · 2025: 2 · 2024: 2 · 2023: 4 · 2022: 7 · 2021: 5 · 2020: 4 · 2019: 8 · 2018: 3 · 2017: 7 · 2016: 13 · 2015: 8 · 2014: 15 · 2013: 14 · 2012: 28
- Type
- posted content
- Language
- en
- Open access
- bronze
- doi.org
- Locations
- Genes & Development (publishedVersion)
- PubMed (publishedVersion)
- HighWire Press Open Archive (submittedVersion)
- Funders
- Genome Canada
- Ontario Genomics
- Ontario Genomics Institute
- Canadian Institutes of Health Research
- National Cancer Institute
- Topics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Genomics and Phylogenetic Studies
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › RNA Research and Splicing
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Single-cell and spatial transcriptomics
- Keywords
- next-generation sequencing, mammalian transcriptome, gene expression profiling, RNA-binding proteins, pre-mRNA processing, alternative splicing, transcriptome complexity
- MeSH terms
- Animals, Gene Expression Regulation, Mammals, RNA Processing, Post-Transcriptional, Trans-Activators, Sequence Analysis, RNA, Gene Expression Profiling
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