Xu J, Chen R, Ling L, Shen R, Sun J
Institute of Biophysics, Academia Sinica, Beijing, P.R. China.
Comput Biol Med. 1993 Jul;23(4):333-43. doi: 10.1016/0010-4825(93)90088-i.
In this paper, the coincident index, proposed by W. F. Friedman in cryptology, is made use of in DNA sequence analysis and exon prediction. The coincident index of exons exceeds that of introns by many times, and is mainly affected by window length, which is correlated negatively with the coincident index. An optimal exon prediction scheme was obtained by experimental analysis with an orthogonal table. Besides exons, many other special sites such as tandem repeats can be identified by using the coincident index approach. The application of this approach to the ARV-2 (AIDS associated retrovirus 2) genome found three new possible coding regions and some unusual base composition regions which are probably related to definite biological functions.
本文将密码学中W.F.弗里德曼提出的重合指数应用于DNA序列分析和外显子预测。外显子的重合指数比内含子的重合指数高出许多倍，且主要受窗口长度影响，窗口长度与重合指数呈负相关。通过用正交表进行实验分析，得到了一种最优的外显子预测方案。除了外显子，利用重合指数方法还可以识别许多其他特殊位点，如串联重复序列。将该方法应用于ARV-2（艾滋病相关逆转录病毒2）基因组，发现了三个新的可能编码区域以及一些可能与特定生物学功能相关的异常碱基组成区域。
