Table 4

Expression data for low abundance genes
DESeq edgeR Raw Counts RPKM
log2 FC Padj log2 FC Padj con1 con2 con3 trt1 trt2 trt3 Control Treatment
Genes turned on
Glyma18g02680 Inf 0.0224 27.39 0.0187 0 0 0 5 1 4 0 0.08 ± 0.032
Glyma01g41980 Inf 0.0331 27.26 0.0187 0 0 0 3 4 2 0 0.30 ± 0.206
Glyma11g04880 Inf 0.0324 27.25 0.0187 0 0 0 5 2 2 0 0.17 ± 0.054
Glyma16g06500 Inf 0.0320 27.24 0.0326 0 0 0 5 1 3 0 0.14 ± 0.057
Glyma12g05780 Inf 0.0488 27.08 0.0326 0 0 0 3 1 4 0 0.06 ± 0.030
Genes turned off
Glyma07g02590 -Inf 0.0011 −28.11 0.0004 7 4 5 0 0 0 0.20 ± 0.050 0
Glyma17g17930 -Inf 0.0011 −28.12 0.0004 3 5 8 0 0 0 0.17 ± 0.084 0
Glyma17g34230 -Inf 0.0016 −28.02 0.0006 9 3 3 0 0 0 0.54 ± 0.292 0
Glyma12g14620 -Inf 0.0052 −27.71 0.0035 3 5 4 0 0 0 0.57 ± 0.372 0
Glyma03g37640 -Inf 0.0075 −27.56 0.0061 4 2 5 0 0 0 0.14 ± 0.013 0

Log2 fold change, p-value, raw count data and RPKM vaules for representative samples from gene clusters turned on or off by elevated ozone. DESeq outputs an 'Inf' or '-Inf' log2 fold change value to excel when all control or treatment replicates map zero reads.

Yendrek et al.

Yendrek et al. BMC Research Notes 2012 5:506   doi:10.1186/1756-0500-5-506

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