Assessing computational tools for the discovery of transcription factor binding sites

Martin Tompa, Nan Li, Timothy L. Bailey, George M. Church, Bart De Moor, Eleazar Eskin, Alexander V. Favorov, Martin C. Frith, Yutao Fu, W. James Kent, Vsevolod J. Makeev, Andrei A. Mironov, William Stafford Noble, Giulio Pavesi, Graziano Pesole, Mireille Régnier, Nicolas Simonis, Saurabh Sinha, Gert Thijs, Jacques Van HeldenMathias Vandenbogaert, Zhiping Weng, Christopher Workman, Chun Ye, Zhou Zhu

Research output: Contribution to journalReview article

Abstract

The prediction of regulatory elements is a problem where computational methods offer great hope. Over the past few years, numerous tools have become available for this task. The purpose of the current assessment is twofold: to provide some guidance to users regarding the accuracy of currently available tools in various settings, and to provide a benchmark of data sets for assessing future tools.

Original languageEnglish (US)
Pages (from-to)137-144
Number of pages8
JournalNature Biotechnology
Volume23
Issue number1
DOIs
StatePublished - Dec 12 2005

ASJC Scopus subject areas

  • Biotechnology
  • Bioengineering
  • Applied Microbiology and Biotechnology
  • Molecular Medicine
  • Biomedical Engineering

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  • Cite this

    Tompa, M., Li, N., Bailey, T. L., Church, G. M., De Moor, B., Eskin, E., Favorov, A. V., Frith, M. C., Fu, Y., Kent, W. J., Makeev, V. J., Mironov, A. A., Noble, W. S., Pavesi, G., Pesole, G., Régnier, M., Simonis, N., Sinha, S., Thijs, G., ... Zhu, Z. (2005). Assessing computational tools for the discovery of transcription factor binding sites. Nature Biotechnology, 23(1), 137-144. https://doi.org/10.1038/nbt1053