ArticleGenome biology2007
Exon expression profiling reveals stimulus-mediated exon use in neural cells.
Article in Genome biology, 2007. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 29 papers.
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Who cites it
29 citing papers in PubMed.
- Article
- Emerging roles of histone modifications and HDACs in RNA splicing.Nucleic acids research · 2019Review
- A highly sensitive trap vector system for isolating reporter cells and identification of responsive genes.Biology methods & protocols · 2018Article
- Dysregulation of Alternative Poly-adenylation as a Potential Player in Autism Spectrum Disorder.Frontiers in molecular neuroscience · 2017Article
- Splicing factor SRSF1 negatively regulates alternative splicing of MDM2 under damage.Nucleic acids research · 2015Article
- Histone hyperacetylation and exon skipping: a calcium-mediated dynamic regulation in cardiomyocytes.Nucleus (Austin, Tex.) · 2015Article
- Calcium-mediated histone modifications regulate alternative splicing in cardiomyocytes.Proceedings of the National Academy of Sciences of the United States of America · 2014Article
- Differential evolution of signal-responsive RNA elements and upstream factors that control alternative splicing.Cellular and molecular life sciences : CMLS · 2014Review
- Transcription factor abundance controlled by an auto-regulatory mechanism involving a transcription start site switch.Nucleic acids research · 2014Article
- Alteration in basal and depolarization induced transcriptional network in iPSC derived neurons from Timothy syndrome.Genome medicine · 2014Article
- Emerging mechanisms and consequences of calcium regulation of alternative splicing in neurons and endocrine cells.Cellular and molecular life sciences : CMLS · 2013Review
- The splicing landscape is globally reprogrammed during male meiosis.Nucleic acids research · 2013Article
- mRNA expression, splicing and editing in the embryonic and adult mouse cerebral cortex.Nature neuroscience · 2013Article
- Epidermal growth-factor-induced transcript isoform variation drives mammary cell migration.PloS one · 2013Article
- Alternative Splicing of a Novel Inducible Exon Diversifies the CASK Guanylate Kinase Domain.Journal of nucleic acids · 2012Article
- Functional consequences of developmentally regulated alternative splicing.Nature reviews. Genetics · 2011Review
- Identification of Tat-SF1 cellular targets by exon array analysis reveals dual roles in transcription and splicing.RNA (New York, N.Y.) · 2011Article
- Depolarization-mediated regulation of alternative splicing.Frontiers in neuroscience · 2011Article
- Estrogen coordinates translation and transcription, revealing a role for NRSF in human breast cancer cells.Molecular endocrinology (Baltimore, Md.) · 2010Article
- Sporadic ALS has compartment-specific aberrant exon splicing and altered cell-matrix adhesion biology.Human molecular genetics · 2010Article
Corrections and comments
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Authors and funding
7 authors.
Funding
Abstract
backgroundNeuronal cells respond to changes in intracellular calcium ([Ca2+]i) by affecting both the abundance and architecture of specific mRNAs. Although calcium-induced transcription and transcript variation have both been recognized as important sources of gene regulation, the interplay between these two phenomena has not been evaluated on a genome-wide scale.
resultsHere, we show that exon-centric microarrays can be used to resolve the [Ca2+]i-modulated gene expression response into transcript-level and exon-level regulation. Global assessments of affected transcripts reveal modulation within distinct functional gene categories. We find that transcripts containing calcium-modulated exons exhibit enrichment for calcium ion binding, calmodulin binding, plasma membrane associated, and metabolic proteins. Additionally, we uncover instances of regulated exon use in potassium channels, neuroendocrine secretory proteins and metabolic enzymes, and demonstrate that regulated changes in exon expression give rise to distinct transcript variants.
conclusionOur findings connect extracellular stimuli to specific exon behavior, and suggest that changes in transcript and exon abundance are reflective of a coordinated gene expression response to elevated [Ca2+]i. The technology we describe here lends itself readily to the resolution of stimulus-induced gene expression at both the transcript and exon levels.
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