S.A. and J.M. contributed equally as first authors.
Mycobacteria-induced granuloma necrosis depends on IRF-1
Version of Record online: 14 AUG 2008
© 2008 The Authors Journal compilation © 2009 Foundation for Cellular and Molecular Medicine/Blackwell Publishing Ltd
Journal of Cellular and Molecular Medicine
Volume 13, Issue 8b, pages 2069–2082, August 2009
How to Cite
Aly, S., Mages, J., Reiling, N., Kalinke, U., Decker, T., Lang, R. and Ehlers, S. (2009), Mycobacteria-induced granuloma necrosis depends on IRF-1. Journal of Cellular and Molecular Medicine, 13: 2069–2082. doi: 10.1111/j.1582-4934.2008.00470.x
- Issue online: 26 NOV 2009
- Version of Record online: 14 AUG 2008
- Received: March 19, 2008; Accepted: August 7, 2008
Tables S1: Genes regulated more than fivefold in the lungs of WT versus IRF-1-KO mice infected with M. avium.
WT and IRF-1-KO mice were infected by aerosol with M. avium (TMC724, 105 CFU/mouse) and gene expression was analysed in RNA extracted from the lungs at 14 weeks after infection by the Affymetrix Mouse 430A_2 GeneChip, containing a total of 22,690 probe sets. The fold change (FC) is the ratio of average gene expression values in infected compared to uninfected mice (C). Shown are only those genes with a more than fivefold difference in gene expression between infected WT and infected IRF-1-KO mice. The assigned cluster is indicated according to Fig. 5: all genes up-regulated more than fivefold in WT, are assigned to cluster B, whereas all genes up-regulated more than fivefold in IRF-1-KO, except Gzma, are assigned to clusters D, E and F. Repetitive probe sets have different target sequences and might represent alternative splice variants of the same expressed gene. Two-way ANOVA q-value <0.01 in all cases.
Table S2: IFN-γ- and IRF-1-dependent gene expression according to k-means clusters shown in Fig. 7
For all probe sets sorted by the k-means clustering into clusters 1–4 depicted in Fig. 7, the probe set ID, gene symbols, gene description, average expression values for all conditions and fold changes of infected compared to mock treated controls, is shown. Data for the different clusters are shown in separate sheets.
Table S3: Regulation of IFN-γ-pathway genes in M. avium infection which are dependent on IFN-γ and IRF-1 (as depicted in Fig. 9)
For all genes whose regulation is depicted in Fig. 9, the fold changes of infected versus mock controls, as well as the average expression values for each condition, are shown.
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