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Research Article

Genomic Convergence Analysis of Schizophrenia: mRNA Sequencing Reveals Altered Synaptic Vesicular Transport in Post-Mortem Cerebellum

  • Joann Mudge,

    Affiliation: National Center for Genome Resources, Santa Fe, New Mexico, United States of America

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  • Neil A. Miller,

    Affiliation: National Center for Genome Resources, Santa Fe, New Mexico, United States of America

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  • Irina Khrebtukova,

    Affiliation: Illumina Inc., Hayward, California, United States of America

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  • Ingrid E. Lindquist,

    Affiliation: National Center for Genome Resources, Santa Fe, New Mexico, United States of America

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  • Gregory D. May,

    Affiliation: National Center for Genome Resources, Santa Fe, New Mexico, United States of America

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  • Jim J. Huntley,

    Affiliation: National Center for Genome Resources, Santa Fe, New Mexico, United States of America

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  • Shujun Luo,

    Affiliation: Illumina Inc., Hayward, California, United States of America

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  • Lu Zhang,

    Affiliation: Illumina Inc., Hayward, California, United States of America

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  • Jennifer C. van Velkinburgh,

    Affiliation: National Center for Genome Resources, Santa Fe, New Mexico, United States of America

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  • Andrew D. Farmer,

    Affiliation: National Center for Genome Resources, Santa Fe, New Mexico, United States of America

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  • Sharon Lewis,

    Affiliation: National Center for Genome Resources, Santa Fe, New Mexico, United States of America

    X
  • William D. Beavis,

    Affiliation: National Center for Genome Resources, Santa Fe, New Mexico, United States of America

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  • Faye D. Schilkey,

    Affiliation: National Center for Genome Resources, Santa Fe, New Mexico, United States of America

    X
  • Selene M. Virk,

    Affiliation: National Center for Genome Resources, Santa Fe, New Mexico, United States of America

    X
  • C. Forrest Black,

    Affiliation: National Center for Genome Resources, Santa Fe, New Mexico, United States of America

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  • M. Kathy Myers,

    Affiliation: National Center for Genome Resources, Santa Fe, New Mexico, United States of America

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  • Lar C. Mader,

    Affiliation: National Center for Genome Resources, Santa Fe, New Mexico, United States of America

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  • Ray J. Langley,

    Affiliation: National Center for Genome Resources, Santa Fe, New Mexico, United States of America

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  • John P. Utsey,

    Affiliation: National Center for Genome Resources, Santa Fe, New Mexico, United States of America

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  • Ryan W. Kim,

    Affiliation: National Center for Genome Resources, Santa Fe, New Mexico, United States of America

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  • Rosalinda C. Roberts,

    Affiliation: Department of Psychiatry, University of Alabama at Birmingham, Birmingham, Alabama, United States of America

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  • Sat Kirpal Khalsa,

    Affiliation: Northern New Mexico College, Española, New Mexico, United States of America

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  • Meredith Garcia,

    Affiliation: Northern New Mexico College, Española, New Mexico, United States of America

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  • Victoria Ambriz-Griffith,

    Affiliation: Northern New Mexico College, Española, New Mexico, United States of America

    X
  • Richard Harlan,

    Affiliation: Northern New Mexico College, Española, New Mexico, United States of America

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  • Wendy Czika,

    Affiliation: SAS Institute, Cary, North Carolina, United States of America

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  • Stanton Martin,

    Affiliation: SAS Institute, Cary, North Carolina, United States of America

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  • Russell D. Wolfinger,

    Affiliation: SAS Institute, Cary, North Carolina, United States of America

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  • Nora I. Perrone-Bizzozero,

    Affiliation: Department of Neurosciences, University of New Mexico, Albuquerque, New Mexico, United States of America

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  • Gary P. Schroth,

    Affiliation: Illumina Inc., Hayward, California, United States of America

    X
  • Stephen F. Kingsmore mail

    sfk@ncgr.org

    Affiliation: National Center for Genome Resources, Santa Fe, New Mexico, United States of America

    X
  • Published: November 05, 2008
  • DOI: 10.1371/journal.pone.0003625

Reader Comments (2)

Post a new comment on this article

mRNA Seq Data from this manuscript is available for your analysis

Posted by stephenkingsmore on 05 Nov 2008 at 20:50 GMT

mRNA seq data sets are so large that conventional ways of allowing researchers access to the underpinning data are very restrictive.
We have created a web site that allows any investigator to search the aligned mRNA seq data. You can compare the expression of any transcript (or all transcripts!) in any groups of samples. We have provided dynamic query tools, so that you can restrict your analysis to transcripts meeting criteria such as abundance or supported only by uniquely mapping reads. You can also choose whether you would like to see mRNA seq data aligned to the RefSeq transcript database (which contains annotated transcripts) or to the genome (which includes novel exons and some novel transcripts, as well as those in RefSeq transcript). There are two export options - Excell and JMP-Genomics - depending on what type of statistical software you like to use.
The URL for this site is: http://schizophrenia.ncgr...
If you are uncertain how to use the system (called AlpheusTM), then please go to: http://alpheus.ncgr.org/ where there is a more detailed explanation and contact information for technical assistance.
I would very much appreciate your feedback on this new way of disseminating scientific data.
Regards

Stephen Kingsmore