Selection for 3' end triplets for polymerase chain reaction primers.
Selection for 3' end triplets for polymerase chain reaction primers.
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DOI：
10.1016/j.mcp.2004.05.007
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发表时间：
2004-12
影响因子：
3.3
通讯作者：
Melcher U
中科院分区：
文献类型：
--
作者：
Onodera K;Melcher U
引物的3‘端是聚合酶链式反应设计中的关键部分。许多关于3‘端的组成和顺序的建议都是基于理论考虑提出的，但尚未得到实验验证。我们分析了从参考期刊文章中获得的3‘端三元组的聚合酶链式反应引物序列，以检验这些建议，并为引物设计提出经验性建议。在2137个来自病毒寡核苷酸数据库的引物中，可能的3‘端三联体的频率分布不均匀。通过分析，我们发现存在不受欢迎和首选的3‘端三联体，并且这种明显的偏好并不是由于病毒基因组序列中的碱基组成。将从业者喜欢的序列与推荐的序列进行比较，表明没有一个单一的推荐是完全令人满意的。我们建议用一种结合了经验频率的评分系统来取代建议，比如这里报道的那些。
The 3′ end of a primer is a key component of PCR primer design. Many recommendations for the composition and sequence of the 3′ end have been suggested based on theoretical considerations, but have not been verified experimentally. We analyzed 3′ end triplets of PCR primer sequences obtained from refereed journal articles, to test those recommendations and to make empirical recommendations for primer design. The frequencies of the 64 possible 3′end triplets among 2137 PCR primers from the VirOligo database were not uniformly distributed. From the analysis, we found that unfavored and preferred 3′ end triplets existed, and that the apparent preferences were not due to base compositions in viral genome sequences. Comparison of the sequences preferred by practitioners to those recommended, suggested that no single recommendation is entirely satisfactory. We suggest that recommendations be replaced with a scoring system incorporating empirical frequencies such as those reported here.
影响因子：
14.9
作者：
Onodera K;Melcher U
通讯作者：
Melcher U
影响因子：
2.7
作者：
Onodera, K;d'Offay, J;Melcher, U
通讯作者：
Melcher, U
影响因子：
2.7
作者：
Mitsuhashi, M
通讯作者：
Mitsuhashi, M