Li Wencheng, Yang Bo, Liang Shaoguang, Wang Yonghua, Whiteley Chris, Cao Yicheng, Wang Xiaoning
School of Bioscience and Bioengineering, South China University of Technology, Guangzhou 510641, China.
Bioinformatics. 2008 Oct 1;24(19):2254-5. doi: 10.1093/bioinformatics/btn407. Epub 2008 Aug 4.
Blogo is a web-based tool that detects and displays statistically significant position-specific sequence bias with reduced background noise. The over-represented and under-represented symbols in a particular position are shown above and below the zero line. When the sequences are in open reading frames, the background frequency of nucleotides could be calculated separately for the three positions of a codon, thus greatly reducing the background noise. The chi(2)-test or Fisher's exact test is used to evaluate the statistical significance of every symbol in every position and only those that are significant are highlighted in the resulting logo. The perl source code of the program is freely available and can be run locally.
http://acephpx.cropdb.org/blogo/, http://www.bioinformatics.org/blogo/.
Blogo是一个基于网络的工具，它能检测并显示具有统计学显著性的位置特异性序列偏差，同时降低背景噪声。特定位置上出现频率过高和过低的符号分别显示在零线之上和之下。当序列处于开放阅读框时，可以分别计算密码子三个位置的核苷酸背景频率，从而大大降低背景噪声。使用卡方检验或费舍尔精确检验来评估每个位置上每个符号的统计学显著性，只有那些具有显著性的符号才会在生成的序列标志中突出显示。该程序的Perl源代码可免费获取并能在本地运行。
http://acephpx.cropdb.org/blogo/，http://www.bioinformatics.org/blogo/。
