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Research Article

Tumor Transcriptome Sequencing Reveals Allelic Expression Imbalances Associated with Copy Number Alterations

  • Brian B. Tuch equal contributor,

    equal contributor Contributed equally to this work with: Brian B. Tuch, Rebecca R. Laborde

    Affiliation: Life Technologies Inc., Foster City, California, United States of America

    X
  • Rebecca R. Laborde equal contributor,

    equal contributor Contributed equally to this work with: Brian B. Tuch, Rebecca R. Laborde

    Affiliation: Division of Experimental Pathology, Department of Laboratory Medicine and Pathology, Mayo Clinic, Rochester, Minnesota, United States of America

    X
  • Xing Xu,

    Affiliation: Life Technologies Inc., Foster City, California, United States of America

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  • Jian Gu,

    Affiliation: Life Technologies Inc., Austin, Texas, United States of America

    X
  • Christina B. Chung,

    Affiliation: Life Technologies Inc., Foster City, California, United States of America

    X
  • Cinna K. Monighetti,

    Affiliation: Life Technologies Inc., Foster City, California, United States of America

    X
  • Sarah J. Stanley,

    Affiliation: Life Technologies Inc., Foster City, California, United States of America

    X
  • Kerry D. Olsen,

    Affiliation: Department of Otorhinolaryngology, Mayo Clinic, Rochester, Minnesota, United States of America

    X
  • Jan L. Kasperbauer,

    Affiliation: Department of Otorhinolaryngology, Mayo Clinic, Rochester, Minnesota, United States of America

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  • Eric J. Moore,

    Affiliation: Department of Otorhinolaryngology, Mayo Clinic, Rochester, Minnesota, United States of America

    X
  • Adam J. Broomer,

    Affiliation: Life Technologies Inc., Foster City, California, United States of America

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  • Ruoying Tan,

    Affiliation: Life Technologies Inc., Foster City, California, United States of America

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  • Pius M. Brzoska,

    Affiliation: Life Technologies Inc., Foster City, California, United States of America

    X
  • Matthew W. Muller,

    Affiliation: Life Technologies Inc., Foster City, California, United States of America

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  • Asim S. Siddiqui,

    Affiliation: Life Technologies Inc., Foster City, California, United States of America

    X
  • Yan W. Asmann,

    Affiliation: Division of Biomedical Statistics and Informatics, Department of Health Sciences Research, Mayo Clinic, Rochester, Minnesota, United States of America

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  • Yongming Sun,

    Affiliation: Life Technologies Inc., Foster City, California, United States of America

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  • Scott Kuersten,

    Affiliation: Life Technologies Inc., Austin, Texas, United States of America

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  • Melissa A. Barker,

    Affiliation: Life Technologies Inc., Foster City, California, United States of America

    X
  • Francisco M. De La Vega mail,

    francisco.delavega@lifetech.com (FMD); smith.david@mayo.edu (DIS)

    Affiliation: Life Technologies Inc., Foster City, California, United States of America

    X
  • David I. Smith mail

    francisco.delavega@lifetech.com (FMD); smith.david@mayo.edu (DIS)

    Affiliation: Division of Experimental Pathology, Department of Laboratory Medicine and Pathology, Mayo Clinic, Rochester, Minnesota, United States of America

    X
  • Published: February 19, 2010
  • DOI: 10.1371/journal.pone.0009317

About the Authors

Brian B. Tuch, Xing Xu, Christina B. Chung, Cinna K. Monighetti, Sarah J. Stanley, Adam J. Broomer, Ruoying Tan, Pius M. Brzoska, Matthew W. Muller, Asim S. Siddiqui, Yongming Sun, Melissa A. Barker, Francisco M. De La Vega
Life Technologies Inc., Foster City, California, United States of America
Rebecca R. Laborde, David I. Smith
Division of Experimental Pathology, Department of Laboratory Medicine and Pathology, Mayo Clinic, Rochester, Minnesota, United States of America
Jian Gu, Scott Kuersten
Life Technologies Inc., Austin, Texas, United States of America
Kerry D. Olsen, Jan L. Kasperbauer, Eric J. Moore
Department of Otorhinolaryngology, Mayo Clinic, Rochester, Minnesota, United States of America
Yan W. Asmann
Division of Biomedical Statistics and Informatics, Department of Health Sciences Research, Mayo Clinic, Rochester, Minnesota, United States of America

Corresponding Authors

Competing Interests

Some of the authors of this manuscript are or have been employees of Life Technologies Inc., which manufactures the sequencing instrument and some materials used in this work. This does not alter the authors' adherence to the PLoS ONE policies on sharing of data and materials.

Author Contributions

Conceived and designed the experiments: BBT AJB RT PMB SK MAB FMDLV DIS. Performed the experiments: RRL JG CBC CKM SJS AJB. Analyzed the data: BBT XX YWA YAS. Contributed reagents/materials/analysis tools: BBT KDO JLK EJM MWM SK DIS. Wrote the paper: BBT RRL FMDLV DIS. Project Management: ASS.