A bioinformatics approach to distinguish plant parasite and host transcriptomes in interface tissue by classifying RNA-Seq reads

Table 3 Assessment of the accuracy in identifying differentially expressed genes in parasitic tissue

Mapping procedure	Separately onto Cj_contigs_ci1 and Ib_contigs ^c	To a merged set of Cj_contigs_ci1 and Ib_contigs ^d
Differential expression	number of contigs	number of contigs
Upregulated in C. japonica	284^a	284^a
Downregulated in C. japonica	944^b	940^b
Upregulated in I. balsamina	10^a	10^a
Downregulated in I. balsamina	530^a	530^a

^a Member contigs are the same in all classes. ^b 939 transcripts were found in common. ^c Corresponds to Figure 3C. ^d Corresponds to Figure 3D.

ISSN: 1746-4811