长链SAGE分析揭示了小鼠基因组中存在大量新的反义基因。
LongSAGE analysis revealed the presence of a large number of novel antisense genes in the mouse genome.
作者信息
Wahl Matthias B, Heinzmann Ulrich, Imai Kenji
机构信息
Institute of Developmental Genetics, GSF-National Research Center for Environment and Health, Ingolstädter Landstrasse 1, D-85764 Neuherberg, Germany.
出版信息
Bioinformatics. 2005 Apr 15;21(8):1389-92. doi: 10.1093/bioinformatics/bti205. Epub 2004 Dec 7.
MOTIVATION
Despite the increasing notions of the functional importance of antisense transcripts in gene regulation, the genome-wide overview on the ontology of antisense genes has not been obtained. Therefore, we tried to find novel antisense genes genome-wide by using our LongSAGE dataset of 202 015 tags (consisting of 41 718 unique tags), experimentally generated from mouse embryonic tail libraries.
RESULTS
We identified 1260 potential antisense genes, of which 1001 are not annotated in EnsEMBL, thereby being regarded as novel. Interestingly their sense counterparts were co-expressed in the majority of the cases.
CONCLUSIONS
The use of LongSAGE transcriptome data is extremely powerful in the identification of thus-far unknown antisense transcripts, even in the case of well-characterized organisms like the mouse.
CONTACT
动机
尽管反义转录本在基因调控中的功能重要性越来越受到关注，但尚未获得全基因组范围内反义基因本体的概述。因此，我们试图通过使用从小鼠胚胎尾部文库实验生成的包含202015个标签（由41718个独特标签组成）的LongSAGE数据集，在全基因组范围内寻找新的反义基因。
结果
我们鉴定出1260个潜在的反义基因，其中1001个在EnsEMBL中未注释，因此被视为新基因。有趣的是，在大多数情况下，它们的正义对应物是共表达的。
结论
即使在像小鼠这样特征明确的生物体中，使用LongSAGE转录组数据在鉴定迄今未知的反义转录本方面也极其强大。
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