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

Research output: Contribution to journalArticle

162 Scopus citations

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/.

Original languageEnglish
Pages (from-to)W389-W392
JournalNucleic acids research
Volume33
Issue numberSUPPL. 2
DOIs
StatePublished - Jul 1 2005

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    Workman, C. T., Yin, Y., Corcoran, D. L., Ideker, T., Stormo, G. D., & Benos, P. V. (2005). enoLOGOS: A versatile web tool for energy normalized sequence logos. Nucleic acids research, 33(SUPPL. 2), W389-W392. https://doi.org/10.1093/nar/gki439