Gene expression in tonsils in swine following infection with porcine reproductive and respiratory syndrome virus

BMC Veterinary Research

Table 4 Numbers of differentially expressed genes for the factors of Isolate, TVclass, and WUR genotype based on the NanoString data with or without accounting for cell enrichments

Factor and contrast	Without cell enrichment		With cell enrichment		Overlap of differentially expressed genes
Factor and contrast	log₂FC < 0^a	log₂FC > 0^b	log₂FC < 0^a	log₂FC > 0^b	Overlap of differentially expressed genes
Isolate: KS06 vs NVSL	17	74	9	35	26
TVclass: High vs Low	16	36	13	28	9
WUR: AB vs AA	0	0	21	14	0
(High_AB-High_AA) vs (Low_AB-Low_AA)	-^c	-^c	6	36	-^c
(KS06_AB-KS06_AA) vs (NVSL_AB-NVSL_AA)	-^c	-^c	64	20	-^c

^a Gene expression of KS06 > NVSL, or Low>High, or AB>AA, or (High_AB-High_AA) > (Low_AB-Low_AA), or (KS06_AB-KS06_AA) > (NVSL_AB-NVSL_AA)
^b Gene expression of KS06 < NVSL, or Low<High, or AB<AA, or (High_AB-High_AA) < (Low_AB-Low_AA), or (KS06_AB-KS06_AA) < (NVSL_AB-NVSL_AA)
^c This factor was not included in the model

ISSN: 1746-6148