Transcriptome analysis of human tissues and cell lines reveals one dominant transcript per gene.
Transcriptome analysis of human tissues and cell lines reveals one dominant transcript per gene.
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DOI：
10.1186/gb-2013-14-7-r70
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发表时间：
2013-07-01
期刊：
影响因子：
12.3
通讯作者：
Brazma A
中科院分区：
文献类型：
--
作者：
Gonzàlez-Porta M;Frankish A;Rung J;Harrow J;Brazma A
RNA测序为转录组组成的研究开辟了新的途径。大量证据表明，人类转录组包含超过十万种不同的转录本。然而，当考虑到来自同一基因的不同转录本的相对丰度时，这种多样性在多大程度上占上风仍然不清楚。在这里，我们表明，在一个给定的条件下，大多数蛋白质编码基因有一个主要的转录本表达水平显着高于其他人，在人体组织中的主要转录本贡献了近85%的总mRNA从蛋白质编码基因座，而且往往是相同的主要转录本在许多组织中表达。我们检测到一组主要的转录本和最近发表的一组可变剪接的转录本，预测利用蛋白质组学数据翻译之间的高度重叠。因此，我们假设，虽然一些次要的转录本可能发挥功能的作用，主要的可能是主要的贡献者的蛋白质组。然而，我们仍然检测到一个不可忽略的部分蛋白质编码基因的主要转录本不编码蛋白质。总的来说，我们的研究结果表明，从蛋白质编码基因座的转录组是由一个转录每个基因占主导地位，并不是所有的转录，有助于转录组多样性同样可能有助于蛋白质多样性。这一观察结果可以帮助确定蛋白质组学研究中候选靶点的优先顺序，并预测变异研究中检测到的变化的功能影响。
RNA sequencing has opened new avenues for the study of transcriptome composition. Significant evidence has accumulated showing that the human transcriptome contains in excess of a hundred thousand different transcripts. However, it is still not clear to what extent this diversity prevails when considering the relative abundances of different transcripts from the same gene. Here we show that, in a given condition, most protein coding genes have one major transcript expressed at significantly higher level than others, that in human tissues the major transcripts contribute almost 85 percent to the total mRNA from protein coding loci, and that often the same major transcript is expressed in many tissues. We detect a high degree of overlap between the set of major transcripts and a recently published set of alternatively spliced transcripts that are predicted to be translated utilizing proteomic data. Thus, we hypothesize that although some minor transcripts may play a functional role, the major ones are likely to be the main contributors to the proteome. However, we still detect a non-negligible fraction of protein coding genes for which the major transcript does not code a protein. Overall, our findings suggest that the transcriptome from protein coding loci is dominated by one transcript per gene and that not all the transcripts that contribute to transcriptome diversity are equally likely to contribute to protein diversity. This observation can help to prioritize candidate targets in proteomics research and to predict the functional impact of the detected changes in variation studies.
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影响因子：
48
作者：
Katz, Yarden;Wang, Eric T.;Airoldi, Edoardo M.;Burge, Christopher B.
通讯作者：
Burge, Christopher B.
影响因子：
7
作者：
Harrow J;Frankish A;Gonzalez JM;Tapanari E;Diekhans M;Kokocinski F;Aken BL;Barrell D;Zadissa A;Searle S;Barnes I;Bignell A;Boychenko V;Hunt T;Kay M;Mukherjee G;Rajan J;Despacio-Reyes G;Saunders G;Steward C;Harte R;Lin M;Howald C;Tanzer A;Derrien T;Chrast J;Walters N;Balasubramanian S;Pei B;Tress M;Rodriguez JM;Ezkurdia I;van Baren J;Brent M;Haussler D;Kellis M;Valencia A;Reymond A;Gerstein M;Guigó R;Hubbard TJ
通讯作者：
Hubbard TJ
影响因子：
4.4
作者：
Kurmangaliyev, Yerbol Z.;Gelfand, Mikhail S.
通讯作者：
Gelfand, Mikhail S.
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
影响因子：
12.3
作者：
Langmead B;Trapnell C;Pop M;Salzberg SL
通讯作者：
Salzberg SL