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Series GSE35237 Query DataSets for GSE35237
Status Public on Jan 24, 2012
Title LPS treatment of RAW2647 macrophages
Organism Mus musculus
Experiment type Expression profiling by array
Summary Macrophages are central players in the immune response and manifest divergent phenotypes to control inflammation and innate immunity. Signaling factors are traditionally recognized as the stimuli governing macrophage functions. In recent years, metabolism’s importance has been reemphasized as critical signaling and regulatory pathways of human diseases and processes, ranging from cancer to aging, often converge on metabolic responses. In this study, we assessed metabolic features that play critical roles in macrophage function. We constructed a genome-scale metabolic network for the RAW 264.7 cell line, an oft-used in vitro model. We determined immunomodulators of activation. Metabolites well-known to be associated with immunoactivation (e.g., glucose and arginine) and immunosuppression (e.g., tryptophan and vitamin D3) were amongst the most critical effectors. Intracellular metabolic mechanisms linked critical suppressive effectors were assessed, identifying a suppressive role for nucleotide synthesis. Furthermore, we demonstrate how metabolic mechanisms of macrophage activation can be identified by analyzing multi-omic data of LPS-stimulated RAW cells in the context of our predictions. Our study demonstrates metabolism’s role in regulating macrophage activation may be greater than previously anticipated.
Overall design The RAW 264.7 (ATTC) cell line was stimulated for 24 hours with LPS. Treated cells were washed twice with Dulbecco’s PBS and harvested for high-throughput analyses.
Labeled cDNA was prepared as described (Jones et al. 2010). A mixture Cy3-labeled control cDNA and Cy5-labeled were hybridized to Agilent Mouse GE 4x44K v2 Microarray (Agilent Technologies) and processed. Image analysis and intra-chip normalization were performed with Feature Extraction (Agilent). Data were analyzed with MeV ( or with custom python scripts
Contributor(s) Jones MB, Peterson SN, Adkins JN, Palsson B, Bordbar A
Citation(s) 22735334
Submission date Jan 20, 2012
Last update date Jan 19, 2018
Contact name John Braisted
Organization name J Craig Venter Institute
Department PFGRC
Street address 9704 Medical Center Dr
City Rockville
State/province MD
ZIP/Postal code 20850
Country USA
Platforms (1)
GPL10333 Agilent-026655 Whole Mouse Genome Microarray 4x44K v2 (Feature Number version)
Samples (8)
GSM864317 1hr_LPS_R1_vs_0hr_untreatedpool_252665510510_1_1.mev.refIsIA.out
GSM864318 1hr_LPS_R2_vs_0hr_untreatedpool_252665510533_1_1.mev.refIsIA.out
GSM864319 2hr_LPS_R1_vs_0hr_untreatedpool_252665510509_1_2.mev.refIsIA.out
BioProject PRJNA152753

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE35237_RAW.tar 130.1 Mb (http)(custom) TAR (of TXT)
Processed data included within Sample table

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