Workman Christopher T, Yin Yutong, Corcoran David L, Ideker Trey, Stormo Gary D, Benos Panayiotis V
Department of Bioengineering, University of California at San Diego, 9500 Gilman Drive, La Jolla, CA 92093, USA.
Nucleic Acids Res. 2005 Jul 1;33(Web Server issue):W389-92. doi: 10.1093/nar/gki439.
enoLOGOS is a web-based tool that generates sequence logos from various input sources. Sequence logos have become a popular way to graphically represent DNA and amino acid sequence patterns from a set of aligned sequences. Each position of the alignment is represented by a column of stacked symbols with its total height reflecting the information content in this position. Currently, the available web servers are able to create logo images from a set of aligned sequences, but none of them generates weighted sequence logos directly from energy measurements or other sources. With the advent of high-throughput technologies for estimating the contact energy of different DNA sequences, tools that can create logos directly from binding affinity data are useful to researchers. enoLOGOS generates sequence logos from a variety of input data, including energy measurements, probability matrices, alignment matrices, count matrices and aligned sequences. Furthermore, enoLOGOS can represent the mutual information of different positions of the consensus sequence, a unique feature of this tool. Another web interface for our software, C2H2-enoLOGOS, generates logos for the DNA-binding preferences of the C2H2 zinc-finger transcription factor family members. enoLOGOS and C2H2-enoLOGOS are accessible over the web at http://biodev.hgen.pitt.edu/enologos/.
enoLOGOS是一个基于网络的工具，可从各种输入源生成序列图。序列图已成为一种以图形方式表示一组比对序列中的DNA和氨基酸序列模式的流行方法。比对的每个位置由一列堆叠符号表示，其总高度反映该位置的信息含量。目前，可用的网络服务器能够从一组比对序列创建图图像，但没有一个能直接从能量测量或其他来源生成加权序列图。随着用于估计不同DNA序列接触能量的高通量技术的出现，能够直接从结合亲和力数据创建图的工具对研究人员很有用。enoLOGOS可从各种输入数据生成序列图，包括能量测量、概率矩阵、比对矩阵、计数矩阵和比对序列。此外，enoLOGOS可以表示共有序列不同位置的互信息，这是该工具的一个独特功能。我们软件的另一个网络界面C2H2-enoLOGOS可生成C2H2锌指转录因子家族成员的DNA结合偏好图。可通过网络访问http://biodev.hgen.pitt.edu/enologos/获取enoLOGOS和C2H2-enoLOGOS。
