Evidence that microRNA precursors, unlike other non-coding RNAs, have lower folding free energies than random sequences
Evidence that microRNA precursors, unlike other non-coding RNAs, have lower folding free energies than random sequences
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DOI：
10.1093/bioinformatics/bth374
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发表时间：
2004-11-22
期刊：
影响因子：
5.8
通讯作者：
Van de Peer, Y
中科院分区：
文献类型：
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作者：
Bonnet, E;Wuyts, J;Van de Peer, Y
动机：大多数非编码RNA的特征在于决定其功能的特定二级和三级结构。在这里，我们调查的非编码RNA序列的二级结构的折叠能量，如microRNA前体，转移RNA和核糖体RNA在几个真核生物类群。通过随机化测试评估统计偏差，其中将预测的最小折叠自由能与从随机改组原始序列推断的结构获得的值进行比较。与转移RNA和核糖体RNA相比，大多数微小RNA序列明显表现出比改组序列低得多的折叠自由能，表明该序列具有高度趋向于稳定二级结构的趋势。一个可能的使用这种统计测试的框架中的真正的miRNA序列的检测进行了讨论。
Motivation: Most non-coding RNAs are characterized by a specific secondary and tertiary structure that determines their function. Here, we investigate the folding energy of the secondary structure of non-coding RNA sequences, such as microRNA precursors, transfer RNAs and ribosomal RNAs in several eukaryotic taxa. Statistical biases are assessed by a randomization test, in which the predicted minimum free energy of folding is compared with values obtained for structures inferred from randomly shuffling the original sequences.Results: In contrast with transfer RNAs and ribosomal RNAs, the majority of the microRNA sequences clearly exhibit a folding free energy that is considerably lower than that for shuffled sequences, indicating a high tendency in the sequence towards a stable secondary structure. A possible usage of this statistical test in the framework of the detection of genuine miRNA sequences is discussed.