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PubMed · 15980495

enoLOGOS: a versatile web tool for energy normalized sequence logos.

Christopher T Workman·Yutong Yin·David L Corcoran·Trey Ideker·Gary D Stormo·Panayiotis V Benos
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Abstract

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/.

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Amino AcidsBinding SitesComputer GraphicsDNA-Binding ProteinsInternetSequence AlignmentSequence Analysis, DNASoftwareUser-Computer InterfaceZinc FingersJournal ArticleResearch Support, N.I.H., ExtramuralResearch Support, U.S. Gov't, Non-P.H.S.Research Support, U.S. Gov't, P.H.S.

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Christopher T Workman, Yutong Yin, David L Corcoran, Trey Ideker, Gary D Stormo, Panayiotis V Benos. 2005-07-01. enoLOGOS: a versatile web tool for energy normalized sequence logos.. https://doi.org/10.1093/nar%2Fgki439

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