siRNA Selection Server: an automated siRNA oligonucleotide prediction server
siRNA Selection Server: an automated siRNA oligonucleotide prediction server
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DOI：
10.1093/nar/gkh366
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发表时间：
2004-07-01
影响因子：
14.9
通讯作者：
Lewitter, F
中科院分区：
文献类型：
--
作者：
Yuan, BB;Latek, R;Lewitter, F
Whitehead siRNA（短干扰RNA）选择Web服务器（http://jura.wi.mit.edu/bioc/siRNA）自动设计短寡核苷酸，可以特异性地“敲低”目标基因的表达。这些短序列的长度约为21 nt，当合成为双链RNA并引入细胞培养时，可以降低或消除靶基因的功能。根据一个基因的长度，可能有许多可能的21mers组合。一些实验证据已经表明，并不是一个基因中的所有21mers在沉默基因功能方面都具有相同的效果。我们的工具结合了已发表的设计规则，并向科学家展示了基因组中21mers的独特性、双链RNA双工的热力学稳定性、GC含量、SNPs的存在以及其他可能有助于siRNA有效性的特征。
The Whitehead siRNA (short interfering RNA) Selection Web Server (http://jura.wi.mit.edu/bioc/siRNA) automates the design of short oligonucleotides that can specifically 'knock down' expression of target genes. These short sequences are about 21 nt in length, and when synthesized as double stranded RNA and introduced into cell culture, can reduce or eliminate the function of the target gene. Depending on the length of a gene, there are potentially numerous combinations of possible 21mers. Some experimental evidence has already shown that not all 21mers in a gene have the same effectiveness at silencing gene function. Our tool incorporates published design rules and presents the scientist with information about uniqueness of the 21mers within the genome, thermodynamic stability of the double stranded RNA duplex, GC content, presence of SNPs and other features that may contribute to the effectiveness of a siRNA.