Transcript dynamics of proinflammatory genes revealed by sequence analysis of subcellular RNA fractions.
Transcript dynamics of proinflammatory genes revealed by sequence analysis of subcellular RNA fractions.
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DOI：
10.1016/j.cell.2012.05.043
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发表时间：
2012-07-20
期刊：
影响因子：
64.5
通讯作者：
Smale ST
中科院分区：
文献类型：
--
作者：
Bhatt DM;Pandya-Jones A;Tong AJ;Barozzi I;Lissner MM;Natoli G;Black DL;Smale ST
巨噬细胞通过在一个确定的时间级联中调节数百个基因的表达来对炎症刺激作出反应，多种转录和转录后机制对调控网络起作用。我们通过对分级的染色质相关转录本、核质转录本和细胞质转录本进行RNA - Seq，研究了活化巨噬细胞中促炎基因的调控。这种方法学途径使我们能够将新生转录本的合成与转录本加工以及成熟mRNA的积累区分开来。除了记录编码和非编码转录本的亚细胞定位外，研究结果还提供了明确的启动子和染色质特性与不同类别共表达基因的时间调控之间关系的高分辨率视图。数据还显示在染色质组分中全长但不完全剪接的转录本显著积累，这表明剪接通常在转录完成之后发生，转录本保留在染色质上直至完全剪接。
Macrophages respond to inflammatory stimuli by modulating the expression of hundreds of genes in a defined temporal cascade, with diverse transcriptional and post-transcriptional mechanisms contributing to the regulatory network. We examined pro-inflammatory gene regulation in activated macrophages by performing RNA-Seq with fractionated chromatin-associated, nucleoplasmic, and cytoplasmic transcripts. This methodological approach allowed us to separate the synthesis of nascent transcripts from transcript processing and the accumulation of mature mRNAs. In addition to documenting the sub-cellular locations of coding and non-coding transcripts, the results provide a high-resolution view of the relationship between defined promoter and chromatin properties and the temporal regulation of diverse classes of co-expressed genes. The data also reveal a striking accumulation of full-length yet incompletely spliced transcripts in the chromatin fraction, suggesting that splicing often occurs after transcription has been completed, with transcripts retained on the chromatin until fully spliced.
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DOI：
10.1126/science.1179050
发表时间：
2009-10-09
期刊：
Science (New York, N.Y.)
影响因子：
--
作者：
Amit I;Garber M;Chevrier N;Leite AP;Donner Y;Eisenhaure T;Guttman M;Grenier JK;Li W;Zuk O;Schubert LA;Birditt B;Shay T;Goren A;Zhang X;Smith Z;Deering R;McDonald RC;Cabili M;Bernstein BE;Rinn JL;Meissner A;Root DE;Hacohen N;Regev A
通讯作者：
Regev A
影响因子：
64.5
作者：
Hah N;Danko CG;Core L;Waterfall JJ;Siepel A;Lis JT;Kraus WL
通讯作者：
Kraus WL
影响因子：
21.3
作者：
Huang, M;Qian, F;Wen, ZL
通讯作者：
Wen, ZL
DOI：
10.1073/pnas.0910177106
发表时间：
2009-10-27
影响因子：
11.1
作者：
Adelman, Karen;Kennedy, Megan A.;Rogatsky, Inez
通讯作者：
Rogatsky, Inez
影响因子：
9.8
作者：
Brody Y;Neufeld N;Bieberstein N;Causse SZ;Böhnlein EM;Neugebauer KM;Darzacq X;Shav-Tal Y
通讯作者：
Shav-Tal Y