Multiple genes represented for proteins with binding function, such as zinc ion binding (Bra019896), ATP binding (Bra008602, Bra023518), glutathione binding (Bra022815), selenium binding (Bra032756), and FAD/NADP/NADPH binding (Bra001931), showed different expression values in different generations of resynthesized B. napus and its progenitors.
Vertebrate genomes contain a much larger number of Sox genes; humans and mice have 20 Sox genes and fugu has 24 [ 6, 40], with multiple Sox genes represented in each grouping, exhibiting overlapping expression patterns and functions.
The results reported here establish that there are dramatic changes in the transcription rates of a broad range of stress genes (representing multiple regulons) after induction of recombinant protein.
Most of these NBS-LRR gene loci consist of multiple gene members, representing a complex genomic structure commonly conserved in other plant species.
In case of multiple-tagged 8 genes (represented by 17 probes), we selected 8 probes (one probe per gene) with the largest sum of the squares of individual expression values for the respective genes as representatives [24].
In addition, for genes represented multiple times on the microarray, we selected the transcript with the strongest average signal as representative for the respective gene.
Hierarchical clustering based on gene: gene correlations ensured that RT-PCR genes represented multiple clusters.
Genes represented by multiple sense tags were usually represented by multiple antisense tags, but antisense tags did not show a consistent relationship between position on the gene and tag abundance (Additional file 1: Figure S5).
The rest of the genes represented by multiple probes showed consistent expression patterns among the probes.
The array platform included probe sets corresponding to 19851 human genes, with most genes represented by multiple probe sets [40].
