Exon expression profiling reveals stimulus-mediated exon use in neural cells.
Exon expression profiling reveals stimulus-mediated exon use in neural cells.
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DOI：
10.1186/gb-2007-8-8-r159
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发表时间：
2007
期刊：
影响因子：
12.3
通讯作者：
Silver PA
中科院分区：
文献类型：
--
作者：
McKee AE;Neretti N;Carvalho LE;Meyer CA;Fox EA;Brodsky AS;Silver PA
以外显子为中心的基因芯片被用来解决钙调节的基因表达反应到转录水平和外显子水平的调控。神经细胞通过影响特定mRNA的丰度和结构来响应细胞内钙（[Ca2+]i）的变化。虽然钙诱导的转录和转录变异都被认为是基因调控的重要来源，但这两种现象之间的相互作用尚未在全基因组范围内进行评估。在这里，我们表明，外显子为中心的微阵列可以用来解决[Ca2+] i调制的基因表达反应到转录水平和外显子水平的调节。受影响的成绩单的全球评估显示调制不同的功能基因类别。我们发现，含有钙调节外显子的转录本表现出富集钙离子结合，钙调蛋白结合，质膜相关和代谢蛋白。此外，我们发现的情况下，受管制的外显子使用钾通道，神经内分泌蛋白和代谢酶，并表明，受管制的变化外显子表达引起不同的转录变体。我们的研究结果将细胞外刺激与特定的外显子行为联系起来，并表明转录本和外显子丰度的变化反映了对[Ca2+]i升高的协调基因表达反应。我们在这里描述的技术本身很容易在转录和外显子水平的刺激诱导的基因表达的决议。
Exon centric microarrays were used to resolve the calcium-modulated gene expression response into transcript-level an exon-level regulation. Neuronal 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. Here, 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. Our 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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DOI：
10.1073/pnas.0408268102
发表时间：
2005-05-17
影响因子：
11.1
作者：
Chen, M;Gavrilova, O;Weinstein, LS
通讯作者：
Weinstein, LS
影响因子：
7
作者：
Baek, Daehyun;Davis, Colleen;Green, Phil
通讯作者：
Green, Phil
影响因子：
4.5
作者：
Ip, Joanna Y.;Tong, Alan;Lynch, Kristen W.
通讯作者：
Lynch, Kristen W.
影响因子：
2.4
作者：
Beierle, EA;Dai, W;Chen, MK
通讯作者：
Chen, MK
DOI：
10.1111/j.2517-6161.1995.tb02031.x
发表时间：
1995-01-01
影响因子：
5.8
作者：
BENJAMINI, Y;HOCHBERG, Y
通讯作者：
HOCHBERG, Y