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Research Article

Enhanced Regulatory Sequence Prediction Using Gapped k-mer Features

  • Mahmoud Ghandi equal contributor,

    equal contributor Contributed equally to this work with: Mahmoud Ghandi, Dongwon Lee

    Affiliation: Department of Biomedical Engineering, Johns Hopkins University, Baltimore, Maryland, United States of America

    Current address: Broad Institute of MIT and Harvard, Cambridge, Massachusetts, United States of America

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  • Dongwon Lee equal contributor,

    equal contributor Contributed equally to this work with: Mahmoud Ghandi, Dongwon Lee

    Affiliation: Department of Biomedical Engineering, Johns Hopkins University, Baltimore, Maryland, United States of America

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  • Morteza Mohammad-Noori,

    Affiliations: School of Mathematics, Statistics and Computer Science, University of Tehran, Tehran, Iran, School of Computer Science, Institute for Research in Fundamental Sciences (IPM), Tehran, Iran

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  • Michael A. Beer mail

    mbeer@jhu.edu

    Affiliations: Department of Biomedical Engineering, Johns Hopkins University, Baltimore, Maryland, United States of America, McKusick-Nathans Institute of Genetic Medicine, Johns Hopkins University, Baltimore, Maryland, United States of America

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  • Published: July 17, 2014
  • DOI: 10.1371/journal.pcbi.1003711

About the Authors

Mahmoud Ghandi, Dongwon Lee, Michael A. Beer
Department of Biomedical Engineering, Johns Hopkins University, Baltimore, Maryland, United States of America
Morteza Mohammad-Noori
School of Mathematics, Statistics and Computer Science, University of Tehran, Tehran, Iran
Morteza Mohammad-Noori
School of Computer Science, Institute for Research in Fundamental Sciences (IPM), Tehran, Iran
Michael A. Beer
McKusick-Nathans Institute of Genetic Medicine, Johns Hopkins University, Baltimore, Maryland, United States of America

Corresponding Author

Email: mbeer@jhu.edu

Competing Interests

The authors have declared that no competing interests exist.

Author Contributions

Conceived and designed the experiments: MG DL MAB. Performed the experiments: MG DL. Analyzed the data: MG DL. Contributed reagents/ materials/analysis tools: MG DL MMN. Wrote the paper: MG DL MAB.