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The gene expression values in Level 3 data files are platform dependent. You should consult the SDRF, IDF and DESCRIPTION.txt files for the platform in question to learn what the expression values represent.

In general, the array based platforms such as the Agilent microarrays are normalized to a Stratagene standard. Expression levels from sequencing based platforms such as Illumina GA or Illumina HiSeq are usually expressed as RPKM (Reads Per Kilobase of exon model per Million mapped reads) values.

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