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Microarray analysis of foam cells in wild-type and LDLR(-/-) mice

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Introduction

Experimental design

Peritoneal macrophages were obtained from thioglycolate-stimulated mice, as per protocols PP0000001401, PP0000001502 and PP0000001801 (pdf). Cells were treated for 6 or 24 hours with Kdo2-Lipid A.

Array Design

45,214 spots on the array
41,034 data spots
38,838 unique probes (6428 probes have no gene id)
21,609 unique mouse genes

Each gene was represented by 1 - 9 probes
Each probe was spotted 1 or 10 times

Data Normalization

Data normalization was performed as described in J Mol Endocrinol Sasik et al. 33 (1): 1 (PDF)

Other Experiments

Microarray analysis of LPS responses of thioglycolate-elicited macrophages and counter-regulation by glucocorticoid receptor, PPARγ and LXR-specific ligands