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We obtained a total of 36 microarray data corresponding to 12 samples with 3 replicates for each treatment and control conditions.
Coexpression analysis was performed based on the expression profile of 5400 NRGs in 179 microarray data corresponding to 36 data from N, P, and K deficiency treatments, and 143 data derived from previous transcriptome analysis of various organs and tissues.
A total of 29 results from the hepatic microarray data, corresponding to 24 different genes, were tested by Q-RT-PCR, and 27 (93.1%) of them showed concordant results by these two methods (Figures 1 and 2).
The RMA statistical algorithm [77], available under the Bioconductor software package of R, was used for background noise removal, normalization and summarization of microarray data corresponding to two independent experiments for each condition (cells starved for carbon for 30 and 60 min, and the respective controls).
Microarray data corresponding to the flax BGALs were then extracted.
The microarray data corresponding to these experiments can be accessed in the NCBI's GEO database [ 101] (accession number: GES13990).
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The PROBE_SET table contains the probe IDs, GenBank accession number, and the corresponding sequence and clone IDs to map to our soybean EST data, and hence associates the microarray data with corresponding transcript, protein and functional annotations.
High correlations between these microarray data and corresponding qPCR results have been demonstrated previously[ 18].
Currently, 144 different microarray data sets corresponding to 36 different abiotic and biotic stimuli have been annotated to PathoPlant.
The microarray data and corresponding step-by-step analysis is posted as supplementary data on the BMC-Cancer web site [ 32].
Conversely, transcripts of complex III 10 kDa subunit and complex III assembly factor BCS1L, were unchanged in the microarray data and the corresponding proteins were found unchanged by Western blot analysis (Figure 2B).
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