Mammalian miRNA curation through next-generation sequencing.
Mammalian miRNA curation through next-generation sequencing.
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DOI：
10.3389/fgene.2013.00145
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发表时间：
2013
影响因子：
3.7
通讯作者：
Tuschl T
中科院分区：
文献类型：
--
作者：
Brown M;Suryawanshi H;Hafner M;Farazi TA;Tuschl T
特征性的小RNA生物发生加工模式用于从下一代测序数据中发现新的microRNA（miRNAs）。在这里，我们强调并讨论了基于小RNA测序数据的哺乳动物特异性人类miRNA数据库管理的关键标准。将从小RNA cDNA文库获得的序列读数与参考基因组区域进行比对，并通过其独特的读取长度和双峰读取频率分布、推断的miRNA茎环前体分子的预测二级结构以及在较小程度上基于来自其他脊椎动物的小RNA的进化保守性来揭示miRNA基因。正确管理的miRNA数据库是对miRNA生物学、诊断学和治疗学感兴趣的研究人员的重要资源。
Characteristic small RNA biogenesis processing patterns are used for the discovery of novel microRNAs (miRNAs) from next-generation sequencing data. Here, we highlight and discuss key criteria for mammalian – specifically human – miRNA database curation based on small RNA sequencing data. Sequence reads obtained from small RNA cDNA libraries are aligned to reference genomic regions, and miRNA genes are revealed by their distinct read length and bimodal read frequency distribution, the predicted secondary structure of the deduced miRNA stem-loop precursor molecule, and, to a lesser degree, based on evolutionary conservation of small RNAs from other vertebrates. Properly curated miRNA databases are an important resource for investigators interested in miRNA biology, diagnostics, and therapeutics.