Table 2

Cluster analysis of infection-induced gene expression changes
Leading terma No. of genesb Group p-value Term p-valueb
CPXV blood vessel development 49 4.8 × 10-11 7.6 × 10-9
negative regulation of protein kinase activity 25 1.4 × 10-14 1.1 × 10-8
myeloid cell differentiation 22 6.5 × 10-4 5.4 × 10-3
negative regulation of protein serine/threonine kinase activity 22 8.0 × 10-18 1.1 × 10-10
ERK1 and ERK2 cascade 20 1.7 × 10-11 3.8 × 10-6
regulation of ERK1 and ERK2 cascade 19 1.8 × 10-12 1.3 × 10-6
regulation of actin cytoskeleton organization 18 1.1 × 10-4 4.5 × 10-3
negative regulation of MAP kinase activity (gene set 1) 17 4.4 × 10-8 1.0 × 10-8
negative regulation of MAP kinase activity (gene set 2) 17 1.4 × 10-11 1.0 × 10-8
regulation of leukocyte migration 14 6.2 × 10-8 5.5 × 10-5
negative regulation of hormone secretion 13 4.6 × 10-5 1.0 × 10-6
negative regulation of Wnt receptor signalling pathway 11 4.2 × 10-3 1.1 × 10-1
nephron development 11 2.4 × 10-5 3.8 × 10-2
positive regulation of nitric oxide biosynthetic process 10 5.0 × 10-6 2.5 × 10-5
positive regulation of transmission of nerve impulse 9 7.7 × 10-4 3.9 × 10-3
positive regulation of mitosis 7 2.2 × 10-6 1.8 × 10-2
negative regulation of insulin receptor signalling pathway 6 n.a.c 1.3 × 10-2
MPXV positive regulation of NF-κB transcription factor activity 12 1.8 × 10-16 5.3 × 10-8
negative regulation of intracellular protein kinase cascade 11 n.a.c 2.6 × 10-6
negative regulation of hormone secretion 10 n.a.c 3.3 × 10-9
negative regulation of MAP kinase activity 8 n.a.c 1.8 × 10-5
cellular response to lipopolysaccharide 8 9.3 × 10-9 8.1 × 10-5
positive regulation of Rho GTPase activity 7 n.a.c 2.7 × 10-4
astrocyte differentiation 6 n.a.c 2.0 × 10-4
regulation of gliogenesis 6 n.a.c 1.3 × 10-3
VACV negative regulation of MAPK cascade 12 7.0 × 10-6 2.5 × 10-4
ovum-producing ovary development 8 n.a.c 4.8 × 10-2
potassium ion transmembrane transport 6 n.a.c 4.1 × 10-2
cellular potassium ion transport 6 n.a.c 4.1 × 10-2

a Overrepresented biological processes identified by GO clustering of the genes affected by CPXV, MPXV or VACV infection. Related terms were merged into functional groups to reduce redundancy, and the most significant term of the group was defined as group-leading term.

b The degree of connectivity between terms is calculated using κ statistics, and the calculated κ score is also used for defining functional groups. Shown are the identified overrepresented processes, the number of infection-regulated genes assigned to that process and the term p-values.

cn.a. = not applicable. Only term p-values are given if no grouping was done.

Bourquain et al.

Bourquain et al. Virology Journal 2013 10:61   doi:10.1186/1743-422X-10-61

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