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FPKM is a similar measurement to RPKM, which measures gene expression in Reads Per exon Kilobase per Million mapped reads (RPKM).
The second dataset measures gene expression through root developmental time in Arabidopsis thaliana [ 3].
Second, they measure different biological phenomena, one measures gene expression, or the mRNA levels, and another measures methylation signals.
This observation suggests that both the no depletion_NuGEN and the Globin PNAs_Affymetrix method produce microarray data that accurately measures gene expression not detected by the other methods.
The important difference between those platforms is that HuEx-1.0ST measures gene expression at the exon level – each probeset corresponds to a single exon rather than gene.
This method measures gene expression levels simultaneously with TSS identification by counting the sequenced 5' ends of full-length cDNAs, termed CAGE tags [ 2, 6].
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Additional file 5 is a supplementary figure showing that certain highly-expressed microarray probes do not accurately measure gene expression.
Microarrays are able to measure gene expression changes, but are limited by the availability of Expressed Sequence Tags (ESTs).
DNA microarrays are a well-established technology for measuring gene expression levels.
We cultured each cell line for 24 h with and without 75 mM ethanol and measured gene expression using microarrays.
Another reason for choosing this assay is the fact that the manufacturer specially formulated a commercial kit to measure gene expression for acute radiation exposure (http://redidx.com/index.php).
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