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Clustering of microarray samples and genes during sweetpotato root development.
(A) Hierarchical clustering of all microarray samples and genes was carried out by using Cluster 3.0.
Relative expression levels from Real-time PCR were calculated separately for microarray samples and the independent samples.
Likewise IL-6, selected because it was detectable in 70% of the microarray samples, and the positive control, IFNγ-R1, were detectable by rt-PCR for all samples.
PPIA, a standard endogenous control from Applied Biosystems was chosen for the normalization of all target genes as it was consistently expressed in microarray samples, and showed no correlation with age or with the template.
Five genes (ATF3, ATF4, ID2, GSK3β and GADD45) were significantly upregulated and one gene (BTG2) was significantly downregulated in microarray analysis, and in RT-qPCR performed using the microarray samples and RT-qPCR using four independent experiments.
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SW generated the microarray sample and analyzed the transcript data.
In Mexico, developmental samples were collected just before (21.5 hours) and just after (28 and 50.5 hours) the microarray samples (24 and 48 hours).
SV performed microarray samples preparation and hybridization.
SYH performed the genome sequencing, microarray samples preparation and gene disruption.
In total, ISG15 expression was analysed in both complete biopsy samples (four Ta, and five T2 T4 tumours), and in tissue microarray samples (20 Ta, and 20 tumoursumours).
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