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从表达数据中检测微小RNA结合及小干扰RNA脱靶效应。

Detecting microRNA binding and siRNA off-target effects from expression data.

作者信息

van Dongen Stijn, Abreu-Goodger Cei, Enright Anton J

机构信息

Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, CB10 1SA, UK.

出版信息

Nat Methods. 2008 Dec;5(12):1023-5. doi: 10.1038/nmeth.1267. Epub 2008 Nov 2.

DOI:10.1038/nmeth.1267
PMID:18978784
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC2635553/
Abstract

Sylamer is a method for detecting microRNA target and small interfering RNA off-target signals in 3' untranslated regions from a ranked gene list, sorted from upregulated to downregulated, after a microRNA perturbation or RNA interference experiment. The output is a landscape plot that tracks occurrence biases using hypergeometric P-values for all words across the gene ranking. We demonstrated the utility, speed and accuracy of this approach on several datasets.

摘要

Sylamer是一种用于在微小RNA干扰或RNA干扰实验后，从按上调到下调排序的基因列表中检测3'非翻译区中微小RNA靶标和小干扰RNA脱靶信号的方法。输出结果是一个景观图，它使用超几何P值跟踪基因排名中所有单词的出现偏差。我们在几个数据集上展示了这种方法的实用性、速度和准确性。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/c9cb/2635553/459106e247e3/ukmss-2618-f0002.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/c9cb/2635553/4f93a580cddb/ukmss-2618-f0001.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/c9cb/2635553/459106e247e3/ukmss-2618-f0002.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/c9cb/2635553/4f93a580cddb/ukmss-2618-f0001.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/c9cb/2635553/459106e247e3/ukmss-2618-f0002.jpg

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