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  • house-keeping genes in RNA-seq data sets?

    Hi All,
    Does anyone out there know of a good reference or two on the depth of coverage required to cover most transcripts and gauge expression levels in RNA-seq experiments? In particular, can anyone give me an idea of what percentage of sequences in their RNA-seq data sets are from what you would consider house-keeping genes? I have one reference in yeast from Wilhelm and Landry (2009) but I can't seem to find much else.
    many thanks . . .

  • #2
    You might wanna take a look at this publication:

    Ramsk├Âld,D. et al. (2009) An abundance of ubiquitously expressed genes revealed by tissue transcriptome sequence data. PLoS computational biology, 5, e1000598.

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    • #3
      Thanks!

      thanks Pascal, this study is just what I was looking for. very comprehensive too. many thanks .

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      • #4
        That's very interesting, ignoring UTR mapped reads to remove the bias in rna-seq data!
        --
        bioinfosm

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