Table 1.

Statistics of differential transcription calls (padj < 0.01 and more than 2-fold change) and aggregation of transcript level significance calls into genes (annotation by Arabidopsis genes) and reactions.

DIFFERENTIAL EXPRESSION IN B. NAPUS TRANSCRIPTS (3170 vs. 3231)
Number of transcripts annotated by homology to Arabidopsis genes	89315
Number of associated Arabidopsis gene identifiers	19087
Average number of transcripts per Arabidopsis gene identifier	4.7
Number of transcripts with significantly higher expression in 3170 (“T”)	2165
Number of transcripts with significantly higher expression in 3231 (“S”)	1958
AGGREGATED GENE-LEVEL SIGNIFICANCE
Transcript level calls unambiguously combine to “T”	1064
+ ratio of summed expression values is higher in 3170	847
Transcript level calls unambiguously combine to “S”	911
+ ratio of summed expression values is higher in 3231	717
AGGREGATED REACTION-LEVEL SIGNIFICANCE
Number of bna572+ associated genes for which expression was found	860
Reaction level calls unambiguously combine to “T”	45
+ flux higher in 3170	23
Reaction level calls unambiguously combine to “S”	82
+ flux higher in 3231	4

See also Supplementary Tables 3A,B. “T”: up-regulated in accession 3170, “S”: up-regulated in accession 3231.