最大序列比对不能预测RNAi对脱靶基因的调控

2005 IEEE Computational Systems Bioinformatics Conference - Workshops (CSBW'05) Pub Date : 2005-08-08 DOI:10.1109/CSBW.2005.90

A. Birmingham, E. Anderson, W. Marshall, A. Khvorova

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引用次数: 0

摘要

我们采用了各种序列比对算法和评分技术来确定当前的计算工具是否准确地预测了RNA干扰(RNAi)途径脱靶的基因。我们的研究表明，脱靶基因和非靶向基因的最大比对分数分布在统计上无法区分，这表明最大互补性本身并不能令人满意地预测脱靶。有趣的是，在siRNA的种子区(碱基2-7)与其脱靶基因之间的脱靶和精确互补之间观察到高度显著的关联。这种模式已经在microrna介导的基因敲低中被发现，并表明这些链的5个末端在rnai触发的基因抑制中起着独特的作用。

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Maximum sequence alignment fails to predict off-targeted gene regulation by RNAi

We have employed various sequence alignment algorithms and scoring techniques to determine whether current computational tools accurately predict genes that will be off-targeted by the RNA interference (RNAi) pathway. Our studies show that distributions of maximum alignment scores for off-targeted and untargeted genes are statistically indistinguishable, indicating that maximum complementarity by itself is an unsatisfactory predictor of off-targeting. Interestingly, a highly significant association was observed between off-targeting and exact complementarity between the seed region (bases 2-7) of siRNA and their off-targeted genes. This pattern has been previously recognized in microRNA-mediated gene knockdown and suggests a distinctive role for the 5 terminus of these strands in RNAi-triggered gene suppression.

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2005 IEEE Computational Systems Bioinformatics Conference - Workshops (CSBW'05)

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