Over 20% of human transcripts might form sense-antisense pairs
Over 20% of human transcripts might form sense-antisense pairs
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DOI：
10.1093/nar/gkh818
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发表时间：
2004-01-01
影响因子：
14.9
通讯作者：
Rowley, JD
中科院分区：
文献类型：
--
作者：
Chen, JJ;Sun, M;Rowley, JD
从公共数据库中鉴定天然有义-反义（SA）转录物的主要挑战是如何确定表达序列（尤其是表达序列标签序列）的正确方向。在这项研究中，我们建立了一套非常严格的标准来确定每个人类转录本的正确方向。我们使用这些方向可靠的转录本在人类基因组中创建了26741个转录簇。我们的分析表明，22%（5880）的人类转录簇形成SA对，高于任何以前的估计。我们的定向特异性RT-PCR结果沿着与以前研究的实验数据的比较证实了我们的SA数据集是可靠的。这项研究不仅表明，我们的标准预测SA转录是有效的，但也提供了额外的令人信服的数据来支持的观点，反义转录是相当普遍的人类基因组。深入分析表明，SA转录本与其他类型的转录本相比，在染色体分布、基因本体注释的生理作用、功能和基因产物的空间定位等方面存在显著差异。
The major challenge to identifying natural sense- antisense (SA) transcripts from public databases is how to determine the correct orientation for an expressed sequence, especially an expressed sequence tag sequence. In this study, we established a set of very stringent criteria to identify the correct orientation of each human transcript. We used these orientation-reliable transcripts to create 26 741 transcription clusters in the human genome. Our analysis shows that 22% (5880) of the human transcription clusters form SA pairs, higher than any previous estimates. Our orientation-specific RT-PCR results along with the comparison of experimental data from previous studies confirm that our SA data set is reliable. This study not only demonstrates that our criteria for the prediction of SA transcripts are efficient, but also provides additional convincing data to support the view that antisense transcription is quite pervasive in the human genome. In-depth analyses show that SA transcripts have some significant differences compared with other types of transcripts, with regard to chromosomal distribution and Gene Ontology-annotated categories of physiological roles, functions and spatial localizations of gene products.