Highly expressed genes are associated with inverse antisense transcription in mouse
Highly expressed genes are associated with inverse antisense transcription in mouse
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DOI：
10.1007/s12041-007-0015-x
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发表时间：
2007-08-01
影响因子：
1.5
通讯作者：
Gyoerffy, Balazs
中科院分区：
文献类型：
--
作者：
Gyoerffy, Andras;Surowiak, Pawel;Gyoerffy, Balazs
越来越多的证据表明，反义转录可能在一系列人类疾病中起着关键作用。虽然对预定义的义-反义对进行了广泛的研究，但对已知义基因的反义表达却很少进行研究。我们检索并关联了1182个小鼠转录本的正义和反义序列的表达，以评估其流行程度并找到反义转录的特征模式。我们将3个Affymetrix MGU74A版本1小鼠基因组芯片与6个MGU74A版本2芯片进行了对比。对于这1182个转录本，版本1芯片包含版本2芯片上呈现的转录本的反义序列。原始数据取自GEO数据库（GDS431和GDS432）。由于Affymetrix数据是半定量的，我们分析了反义伴侣的相对表达水平。我们检测到反义转录，尽管平均反义表达。向较小的表达式值偏移（MGU74A版本1,516；版本2,1688）。在高表达值时，正义和反义表达值呈负相关。在一个非常高的相对表达式（超过40,000）时，Pearson相关系数接近于-1。高反表达率的转录本可能与所研究的基因（主要组织相容性复合体II类反式激活因子）相关。不同染色体的正义转录本与反义转录本的比例不同；在第14和1号染色体上，反义表达水平高于正义表达水平。我们得出结论，反义转录是小鼠基因组中的一种普遍现象。高表达基因的反义基因逆表达支持了反义转录物调控作用的假设。
There is a growing evidence, that antisense transcription might have a key role in a range of human diseases. Although predefined sense-antisense pairs were extensively studied, the antisense expression of the known sense genes is rarely investigated. We retrieved and correlated the expression of sense and antisense sequences of 1182 mouse transcripts to assess the prevalence and to find the characteristic pattern of antisense transcription. We contrasted three Affymetrix MGU74A version 1 mouse genome chips to six MGU74A version 2 chips. For these 1182 transcripts, the version 1 chips contain the antisense sequences of the transcripts presented on the version 2 chips. The original data was taken from the GEO database (GDS431 and GDS432). As the Affymetrix data are semiquantitative, the relative expression levels of antisense partners were analysed. We detected antisense transcription, although the average antisense expression. is shifted towards smaller expression values (MGU74A version 1, 516; version 2, 1688). An inverse direct correlation between sense and antisense expression values could be observed at high expression values. At a very high relative expression-above 40,000-the Pearson correlation coefficient is getting closer to -1. Transcripts with high inverse expression ratio may be correlated to the investigated gene (major histocompatibility complex class II trans activator). The ratio of sense to antisense transcripts varied among different chromosomes; on chromosomes 14 and 1 the level of antisense expression was higher than that of sense. We conclude that antisense transcription is a common phenomenon in the mouse genome. The hypothesis of regulatory role of antisense transcripts is supported by the inverse antisense gene expression of highly expressed genes.