genomewide characterization of host-pathogen interactions by ...

Maren Depke
Results
Gene Expression Pattern of Bone-Marrow Derived Macrophages after Interferon-gamma Treatment
Table R.3.13: Strain differences in gene expression of GTPase family members and complement system components between BMM of
BALB/c and C57BL/6 mice.
Rosetta Resolver Annotation fold change a IFN-γ effect
gene
Entrez
description
alias
name
Gene ID
control IFN-γ BALB/c C57BL/6
Gbp1 guanylate binding protein 1 Mpa1, Gbp-1, Mag-1 14468 -4.1 -30.0 x x
Gbp2 guanylate binding protein 2 14469 1.3 2.3 x x
Mx1 myxovirus (influenza virus) resistance 1 Mx, Mx-1 17857 -2.0 -3.1 x x
Mx2 myxovirus (influenza virus) resistance 2 Mx-2 17858 -3.0 -5.3 x x
C1qb
complement component 1, q subcomponent,
beta polypeptide
12260 6.2 7.8 x
C1qc
complement component 1, q subcomponent,
C chain
C1qg, Ciqc 12262 2.0 3.5 x
C5ar1 complement component 5a receptor 1 C5r1, Cd88, D7Msu1 12273 2.9 2.1
Serping1
serine (or cysteine) peptidase inhibitor, clade G,
C1nh, C1INH
member 1
12258 1.1 2.1 x
a Fold change values were calculated for the comparison of C57BL/6 BMM with the baseline of BALB/c BMM of mean values from
three biological replicates per group. Positive values indicate higher expression in C57BL/6 BMM than in BALB/c BMM, whereas
negative values indicate higher expression in BALB/c BMM than in C57BL/6 BMM. Differential expression between BMM of the two
strains at the same treatment level (IFN-γ treated or medium control) using statistical testing in combination with an absolute fold
change cutoff of 1.5 is indicated in bold.
Table R.3.14: Strain differences in gene expression of MHC molecules and interferon-inducible factors between BMM of BALB/c and
C57BL/6 mice.
Rosetta Resolver Annotation fold change a IFN-γ effect
gene
Entrez
description
alias
name
Gene ID
control IFN-γ BALB/c C57BL/6
H28 histocompatibility 28 H-28, H28-1, NS1178 15061 -21.1 -100.0 x
H2-Ea histocompatibility 2, class II antigen E alpha
Ia3, Ia-3, H-2Ea,
AI323765, E-alpha-f
14968 -64.2 -100.0 x
H2-Q6 histocompatibility 2, Q region locus 6 Qa6, Qa-6, H-2Q6 110557 -2.8 -1.9 x x
H2-Q8 histocompatibility 2, Q region locus 8
Qa8, Qa-2, H-2Q8,
Ms10t, MMS10-T
15019 -4.8 -3.2 x
H2-T24 histocompatibility 2, T region locus 24 H-2T24 15042 -4.6 -2.5 x x
H2-Ab1 histocompatibility 2, class II antigen A, beta 1
IAb, Ia2, Ia-2, Abeta,
H-2Ab, H2-Ab, Rmcs1, 14961 2.1 2.0
I-Abeta
H2-K1 histocompatibility 2, K1, K region H-2K, H2-K, H-2K(d) 14972 1.5 1.6
H2-M2 histocompatibility 2, M region locus 2 H-2M2, Thy19.4 14990 6.2 4.4 x x
Ifi27l2a interferon, alpha-inducible protein 27 like 2A Ifi27, Isg12, Isg12(b1) 76933 -5.4 -4.0
Ifi44 interferon-induced protein 44 p44, MTAP44 99899 -36.1 -5.4 x x
Ifi202 interferon activated gene 202 15949 -20.1 -78.6 x
Ifi203 interferon activated gene 203 15950 -3.9 -2.0 x x
Ifih1 interferon induced with helicase C domain 1
Hlcd, MDA5, MDA-5,
Helicard
71586 -1.5 -1.9 x x
Ifit3
interferon-induced protein with
tetratricopeptide repeats 3
Ifi49 15959 -4.5 -2.5 x x
Ifitm3 interferon induced transmembrane protein 3
Fgls, IP15, Cd225, mil-
1, Cdw217
66141 -5.0 -2.2 x x
Irf7 interferon regulatory factor 7 54123 -7.3 -3.2 x x
Isg20 interferon-stimulated protein DnaQL, HEM45 57444 -1.3 -3.9 x
a Fold change values were calculated for the comparison of C57BL/6 BMM with the baseline of BALB/c BMM of mean values from
three biological replicates per group. Positive values indicate higher expression in C57BL/6 BMM than in BALB/c BMM, whereas
negative values indicate higher expression in BALB/c BMM than in C57BL/6 BMM. Differential expression between BMM of the two
strains at the same treatment level (IFN-γ treated or medium control) using statistical testing in combination with an absolute fold
change cutoff of 1.5 is indicated in bold.
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