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Accession IconE-MEXP-2608

Transcription profiling of Arabidopsis thaliana seedlings using different Affymetrix RNA labelling protocols

Organism Icon Arabidopsis thaliana
Sample Icon 18 Downloadable Samples
Technology Badge Icon Affymetrix Arabidopsis ATH1 Genome Array (ath1121501)

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Description
Here we compare transcriptomic data generated using Affymetrix one-cycle (standard labelling protocol), two-cycle (small-sample protocol) and IVT-Express protocols with the Affymetrix ATH1 array using Arabidopsis root samples. Results obtained with each protocol are broadly similar. However, we show that there are 35 probe sets (of a total of 22810) that are misrepresented in the two-cycle data sets. Of these, 33 probe sets were classed as mis-amplified when comparisons of two independent publicly available data sets were undertaken.
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