Microarray analysis of thioglycolate-elicited and bone marrow-derived macrophages treated with Kdo2-Lipid A (KLA)

Introduction | VAMPIRE Analysis | GOby Analysis
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Introduction

Experimental design

Peritoneal macrophages were obtained from thioglycolate-stimulated mice, as per protocols PP0000001401, PP0000001502 and PP0000001801 (pdf). Bone marrow-derived macrophages were obtained from tibias and femurs of mice as per protocol PP0000003500. 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)

References

  • Kdo2-Lipid A of Escherichia coli, a defined endotoxin that activates macrophages via TLR-4.

    Raetz C, Garrett T, Reynolds C, Shaw W, Moore J, Smith JD, Ribeiro A, Murphy R, Ulevitch R, Fearns C, Reichart D, Glass C, Benner C, Subramaniam S, Harkewicz R, Bowers-Gentry R, Buczynski M, Cooper J, Deems R and Dennis E.

    Journal of Lipid Research 47, 1097-1111 (2006)

    PMID:16479018 [doi:10.1194/jlr.M600027-JLR200]

logo LIPID MAPS is funded by a Wellcome Trust.