Published in J Exp Med on April 02, 2012
High-density lipoprotein mediates anti-inflammatory reprogramming of macrophages via the transcriptional regulator ATF3. Nat Immunol (2013) 2.12
Gut Microbial Metabolites Fuel Host Antibody Responses. Cell Host Microbe (2016) 2.11
Cholesterol, inflammation and innate immunity. Nat Rev Immunol (2015) 1.72
25-Hydroxycholesterol acts as an amplifier of inflammatory signaling. Proc Natl Acad Sci U S A (2014) 1.04
Mechanistic heterogeneity in site recognition by the structurally homologous DNA-binding domains of the ETS family transcription factors Ets-1 and PU.1. J Biol Chem (2014) 0.91
Foam Cell Formation In Vivo Converts Macrophages to a Pro-Fibrotic Phenotype. PLoS One (2015) 0.89
Epigenome-guided analysis of the transcriptome of plaque macrophages during atherosclerosis regression reveals activation of the Wnt signaling pathway. PLoS Genet (2014) 0.84
Atherosclerosis and Alzheimer--diseases with a common cause? Inflammation, oxysterols, vasculature. BMC Geriatr (2014) 0.82
Epigenetic regulation of cholesterol homeostasis. Front Genet (2014) 0.80
Cell-Type Specific Determinants of NRAMP1 Expression in Professional Phagocytes. Biology (Basel) (2013) 0.79
Enhanced HDL Functionality in Small HDL Species Produced Upon Remodeling of HDL by Reconstituted HDL, CSL112: Effects on Cholesterol Efflux, Anti-Inflammatory and Antioxidative Activity. Circ Res (2016) 0.79
Rapid proteasomal elimination of 3-hydroxy-3-methylglutaryl-CoA reductase by interferon-γ in primary macrophages requires endogenous 25-hydroxycholesterol synthesis. Steroids (2015) 0.79
Anti-inflammatory effects of high-density lipoprotein through activating transcription factor 3: benefit beyond cholesterol transport-dependent processes. Arterioscler Thromb Vasc Biol (2014) 0.77
An LXR-NCOA5 gene regulatory complex directs inflammatory crosstalk-dependent repression of macrophage cholesterol efflux. EMBO J (2015) 0.77
The common stress responsive transcription factor ATF3 binds genomic sites enriched with p300 and H3K27ac for transcriptional regulation. BMC Genomics (2016) 0.77
An Empirical Prior Improves Accuracy for Bayesian Estimation of Transcription Factor Binding Site Frequencies within Gene Promoters. Bioinform Biol Insights (2016) 0.76
Methionine and S-adenosylmethionine levels are critical regulators of PP2A activity modulating lipophagy during steatosis. J Hepatol (2015) 0.76
Glucocorticoid Induces Hepatic Steatosis by Inhibiting Activating Transcription Factor 3 (ATF3)/S100A9 Protein Signaling in Granulocytic Myeloid-derived Suppressor Cells. J Biol Chem (2016) 0.75
Modulating Oxysterol Sensing to Control Macrophage Apoptosis and Atherosclerosis. Circ Res (2016) 0.75
Interferon Control of the Sterol Metabolic Network: Bidirectional Molecular Circuitry-Mediating Host Protection. Front Immunol (2016) 0.75
Transcriptome Profiling in Systems Vascular Medicine. Front Pharmacol (2017) 0.75
Identifying novel transcription factors involved in the inflammatory response by using binding site motif scanning in genomic regions defined by histone acetylation. PLoS One (2017) 0.75
IL-27-Induced Type 1 Regulatory T-Cells Produce Oxysterols that Constrain IL-10 Production. Front Immunol (2017) 0.75
A simple method for the isolation and purification of total lipides from animal tissues. J Biol Chem (1957) 173.99
Summaries of Affymetrix GeneChip probe level data. Nucleic Acids Res (2003) 52.74
CellProfiler: image analysis software for identifying and quantifying cell phenotypes. Genome Biol (2006) 32.51
Evolving gene/transcript definitions significantly alter the interpretation of GeneChip data. Nucleic Acids Res (2005) 17.58
ApoE-deficient mice develop lesions of all phases of atherosclerosis throughout the arterial tree. Arterioscler Thromb (1994) 8.54
Macrophages in the pathogenesis of atherosclerosis. Cell (2011) 7.78
Detection of functional DNA motifs via statistical over-representation. Nucleic Acids Res (2004) 6.31
Systems biology approaches identify ATF3 as a negative regulator of Toll-like receptor 4. Nature (2006) 6.28
Role of cholesterol and lipid organization in disease. Nature (2005) 5.07
Function of C/EBPdelta in a regulatory circuit that discriminates between transient and persistent TLR4-induced signals. Nat Immunol (2009) 3.60
ATF3 and stress responses. Gene Expr (1999) 3.31
Acetylation of histone H4 plays a primary role in enhancing transcription factor binding to nucleosomal DNA in vitro. EMBO J (1996) 3.25
Uncovering a macrophage transcriptional program by integrating evidence from motif scanning and expression dynamics. PLoS Comput Biol (2008) 3.02
Cholesterol ester formation in cultured human fibroblasts. Stimulation by oxygenated sterols. J Biol Chem (1975) 2.46
Identification of major proteins in the lipid droplet-enriched fraction isolated from the human hepatocyte cell line HuH7. Biochim Biophys Acta (2004) 2.33
Nuclear receptors in macrophage biology: at the crossroads of lipid metabolism and inflammation. Annu Rev Cell Dev Biol (2004) 2.21
25-Hydroxycholesterol secreted by macrophages in response to Toll-like receptor activation suppresses immunoglobulin A production. Proc Natl Acad Sci U S A (2009) 2.14
Role for activating transcription factor 3 in stress-induced beta-cell apoptosis. Mol Cell Biol (2004) 2.10
Systems biology of innate immunity. Immunol Rev (2009) 1.87
Disruption of the oxysterol 7alpha-hydroxylase gene in mice. J Biol Chem (2000) 1.76
Finding the right niche: B-cell migration in the early phases of T-dependent antibody responses. Int Immunol (2010) 1.73
Marked upregulation of cholesterol 25-hydroxylase expression by lipopolysaccharide. J Lipid Res (2009) 1.70
Extraction and analysis of sterols in biological matrices by high performance liquid chromatography electrospray ionization mass spectrometry. Methods Enzymol (2007) 1.63
Cholesterol 25-hydroxylase production by dendritic cells and macrophages is regulated by type I interferons. J Leukoc Biol (2010) 1.61
The macrophage scavenger receptor at 30 years of age: current knowledge and future challenges. J Lipid Res (2008) 1.52
Retinosomes: new insights into intracellular managing of hydrophobic substances in lipid bodies. J Cell Biol (2004) 1.45
Induction of ER stress in macrophages of tuberculosis granulomas. PLoS One (2010) 1.45
Thematic review series: the immune system and atherogenesis. Recent insights into the biology of macrophage scavenger receptors. J Lipid Res (2004) 1.38
Effects of sex and age on atherosclerosis and autoimmunity in apoE-deficient mice. Atherosclerosis (1999) 1.38
Induction of fatty acid synthesis is a key requirement for phagocytic differentiation of human monocytes. Proc Natl Acad Sci U S A (2010) 1.35
Qualitative analysis and quantitative assessment of changes in neutral glycerol lipid molecular species within cells. Methods Enzymol (2007) 1.28
Leukocyte lipid bodies regulation and function: contribution to allergy and host defense. Pharmacol Ther (2006) 1.24
Genome-wide histone acetylation data improve prediction of mammalian transcription factor binding sites. Bioinformatics (2010) 1.22
Chemical composition and physical state of lipid deposits in atherosclerosis. Atherosclerosis (1985) 1.20
Bright field microscopy as an alternative to whole cell fluorescence in automated analysis of macrophage images. PLoS One (2009) 1.19
Lipid bodies in inflammatory cells: structure, function, and current imaging techniques. J Histochem Cytochem (2011) 1.17
Redistribution of macrophage cholesteryl ester hydrolase from cytoplasm to lipid droplets upon lipid loading. J Lipid Res (2005) 1.16
Systems analysis identifies an essential role for SHANK-associated RH domain-interacting protein (SHARPIN) in macrophage Toll-like receptor 2 (TLR2) responses. Proc Natl Acad Sci U S A (2011) 1.13
Macrophages, oxysterols and atherosclerosis. Circ J (2010) 1.13
Evaluation of methods for detection of fluorescence labeled subcellular objects in microscope images. BMC Bioinformatics (2010) 1.10
Regulation of sterol synthesis in cultured cells by oxygenated derivatives of cholesterol. J Cell Physiol (1975) 1.08
Oxidative stress-responsive transcription factor ATF3 potentially mediates diabetic angiopathy. Mol Cell Biol (2006) 1.03
Expression of transcriptional repressor ATF3/LRF1 in human atherosclerosis: colocalization and possible involvement in cell death of vascular endothelial cells. Atherosclerosis (2002) 1.01
Acute hypoxia to endothelial cells induces activating transcription factor 3 (ATF3) expression that is mediated via nitric oxide. Atherosclerosis (2008) 0.99
The roles of ATF3, an adaptive-response gene, in high-fat-diet-induced diabetes and pancreatic beta-cell dysfunction. Mol Endocrinol (2010) 0.99
Lipid bodies in oxidized LDL-induced foam cells are leukotriene-synthesizing organelles: a MCP-1/CCL2 regulated phenomenon. Biochim Biophys Acta (2009) 0.99
The emergence of mouse models of atherosclerosis and their relevance to clinical research. J Intern Med (1997) 0.98
A systems biology approach to understanding atherosclerosis. EMBO Mol Med (2010) 0.97
Regulation of sterol regulatory element-binding proteins by cholesterol flux in CaCo-2 cells. J Lipid Res (2001) 0.93
Toll-like receptor-dependent lipid body formation in macrophage foam cell formation. Curr Opin Lipidol (2010) 0.89
ATF3 plays a key role in Kdo2-lipid A-induced TLR4-dependent gene expression via NF-κB activation. PLoS One (2010) 0.84
Regulation of cholesterol biosynthesis and esterification by 25-hydroxycholesterol in a macrophage-like cell line: uncoupling by progesterone. J Lipid Res (1984) 0.84
Correlation among oxysterol potencies in the regulation of the degradation of 3-hydroxy-3-methylglutaryl CoA reductase, the repression of 3-hydroxy-3-methylglutaryl CoA synthase and affinities for the oxysterol receptor. Biochem Biophys Res Commun (1992) 0.83
In vivo formation of 25-hydroxycholesterol from endogenous cholesterol after a single meal, dietary cholesterol challenge. J Lipid Res (1994) 0.80
Rapid analysis of oxysterols by HPLC and UV spectroscopy. Biotechniques (2004) 0.80
Sterol-mediated suppression of HMG-CoA reductase mRNA levels in cultured cells requires protein synthesis. Biochem Biophys Res Commun (1989) 0.78
Cytoplasmic flagellin activates caspase-1 and secretion of interleukin 1beta via Ipaf. Nat Immunol (2006) 9.64
Lipocalin 2 mediates an innate immune response to bacterial infection by sequestrating iron. Nature (2004) 9.40
Systems biology approaches identify ATF3 as a negative regulator of Toll-like receptor 4. Nature (2006) 6.28
Systems biology of vaccination for seasonal influenza in humans. Nat Immunol (2011) 6.09
Caspase-1-induced pyroptosis is an innate immune effector mechanism against intracellular bacteria. Nat Immunol (2010) 6.05
Innate immune detection of the type III secretion apparatus through the NLRC4 inflammasome. Proc Natl Acad Sci U S A (2010) 5.59
Toll-like receptor 5 recognizes a conserved site on flagellin required for protofilament formation and bacterial motility. Nat Immunol (2003) 5.18
Integration with the human genome of peptide sequences obtained by high-throughput mass spectrometry. Genome Biol (2004) 4.91
Pyogenic bacterial infections in humans with IRAK-4 deficiency. Science (2003) 4.80
A cross-platform toolkit for mass spectrometry and proteomics. Nat Biotechnol (2012) 4.48
The evolution of vertebrate Toll-like receptors. Proc Natl Acad Sci U S A (2005) 4.42
Exosomes: proteomic insights and diagnostic potential. Expert Rev Proteomics (2009) 4.27
Toll-like receptor 4 polymorphisms and aspergillosis in stem-cell transplantation. N Engl J Med (2008) 4.16
Caspase-11 protects against bacteria that escape the vacuole. Science (2013) 4.01
Function of C/EBPdelta in a regulatory circuit that discriminates between transient and persistent TLR4-induced signals. Nat Immunol (2009) 3.60
Caspase-1-induced pyroptotic cell death. Immunol Rev (2011) 3.47
A high-confidence human plasma proteome reference set with estimated concentrations in PeptideAtlas. Mol Cell Proteomics (2011) 3.37
Evasion of Toll-like receptor 5 by flagellated bacteria. Proc Natl Acad Sci U S A (2005) 3.35
A common dominant TLR5 stop codon polymorphism abolishes flagellin signaling and is associated with susceptibility to legionnaires' disease. J Exp Med (2003) 3.30
PASSEL: the PeptideAtlas SRMexperiment library. Proteomics (2012) 3.14
Uncovering a macrophage transcriptional program by integrating evidence from motif scanning and expression dynamics. PLoS Comput Biol (2008) 3.02
Pseudomonas aeruginosa activates caspase 1 through Ipaf. Proc Natl Acad Sci U S A (2008) 2.99
iProphet: multi-level integrative analysis of shotgun proteomic data improves peptide and protein identification rates and error estimates. Mol Cell Proteomics (2011) 2.88
Multiple Nod-like receptors activate caspase 1 during Listeria monocytogenes infection. J Immunol (2008) 2.87
The Toll-like receptor 5 stimulus bacterial flagellin induces maturation and chemokine production in human dendritic cells. J Immunol (2003) 2.73
Cross-interference of RLR and TLR signaling pathways modulates antibacterial T cell responses. Nat Immunol (2012) 2.72
A common human TLR1 polymorphism regulates the innate immune response to lipopeptides. Eur J Immunol (2007) 2.71
The pathogen-associated iroA gene cluster mediates bacterial evasion of lipocalin 2. Proc Natl Acad Sci U S A (2006) 2.63
A complete mass-spectrometric map of the yeast proteome applied to quantitative trait analysis. Nature (2013) 2.61
Staphylococcus aureus evades lysozyme-based peptidoglycan digestion that links phagocytosis, inflammasome activation, and IL-1beta secretion. Cell Host Microbe (2010) 2.49
TLR9/MyD88 signaling is required for class switching to pathogenic IgG2a and 2b autoantibodies in SLE. J Exp Med (2006) 2.44
Virus binding to a plasma membrane receptor triggers interleukin-1 alpha-mediated proinflammatory macrophage response in vivo. Immunity (2009) 2.44
TLR5 and Ipaf: dual sensors of bacterial flagellin in the innate immune system. Semin Immunopathol (2007) 2.42
Polymorphisms in TLR2 are associated with increased viral shedding and lesional rate in patients with genital herpes simplex virus Type 2 infection. J Infect Dis (2007) 2.33
HtrA2 promotes cell death through its serine protease activity and its ability to antagonize inhibitor of apoptosis proteins. J Biol Chem (2001) 2.33
Mining a tandem mass spectrometry database to determine the trends and global factors influencing peptide fragmentation. Anal Chem (2003) 2.28
Memory T cell RNA rearrangement programmed by heterogeneous nuclear ribonucleoprotein hnRNPLL. Immunity (2008) 2.13
Proteomics analysis of A33 immunoaffinity-purified exosomes released from the human colon tumor cell line LIM1215 reveals a tissue-specific protein signature. Mol Cell Proteomics (2009) 2.08
Reproducible quantification of cancer-associated proteins in body fluids using targeted proteomics. Sci Transl Med (2012) 2.06
Cutting edge: a Toll-like receptor 2 polymorphism that is associated with lepromatous leprosy is unable to mediate mycobacterial signaling. J Immunol (2003) 2.02
Gene expression dynamics in the macrophage exhibit criticality. Proc Natl Acad Sci U S A (2008) 1.95
Systems biology of innate immunity. Immunol Rev (2009) 1.87
Identification and stoichiometry of glycosylphosphatidylinositol-anchored membrane proteins of the human malaria parasite Plasmodium falciparum. Mol Cell Proteomics (2006) 1.86
A 2020 vision for vaccines against HIV, tuberculosis and malaria. Nature (2011) 1.80
Cutting edge: Cytosolic bacterial DNA activates the inflammasome via Aim2. J Immunol (2010) 1.77
The state of the human proteome in 2012 as viewed through PeptideAtlas. J Proteome Res (2012) 1.72
Lipidomic profiling of influenza infection identifies mediators that induce and resolve inflammation. Cell (2013) 1.69
Computational framework for simulating fluorescence microscope images with cell populations. IEEE Trans Med Imaging (2007) 1.69
TraML--a standard format for exchange of selected reaction monitoring transition lists. Mol Cell Proteomics (2011) 1.65
Role of the Plasmodium export element in trafficking parasite proteins to the infected erythrocyte. Traffic (2008) 1.64
Transcription factor expression in lipopolysaccharide-activated peripheral-blood-derived mononuclear cells. Proc Natl Acad Sci U S A (2007) 1.63
Serpin 2a is induced in activated macrophages and conjugates to a ubiquitin homolog. J Immunol (2002) 1.60
Leishmania promotes its own virulence by inducing expression of the host immune inhibitory ligand CD200. Cell Host Microbe (2011) 1.59
Cutting edge: Tlr5-/- mice are more susceptible to Escherichia coli urinary tract infection. J Immunol (2007) 1.57
State of the human proteome in 2013 as viewed through PeptideAtlas: comparing the kidney, urine, and plasma proteomes for the biology- and disease-driven Human Proteome Project. J Proteome Res (2013) 1.52
A conserved surface on Toll-like receptor 5 recognizes bacterial flagellin. J Exp Med (2007) 1.51
Toll-like receptor polymorphisms and susceptibility to urinary tract infections in adult women. PLoS One (2009) 1.49
Merck Ad5/HIV induces broad innate immune activation that predicts CD8⁺ T-cell responses but is attenuated by preexisting Ad5 immunity. Proc Natl Acad Sci U S A (2012) 1.46
The Mtb proteome library: a resource of assays to quantify the complete proteome of Mycobacterium tuberculosis. Cell Host Microbe (2013) 1.44
A FOXO3-IRF7 gene regulatory circuit limits inflammatory sequelae of antiviral responses. Nature (2012) 1.44
Identification of tuberculosis susceptibility genes with human macrophage gene expression profiles. PLoS Pathog (2008) 1.41
Polymorphisms in Toll-like receptor 9 influence the clinical course of HIV-1 infection. AIDS (2007) 1.39
Toll-like receptor 4 polymorphisms are associated with resistance to Legionnaires' disease. Proc Natl Acad Sci U S A (2005) 1.39
Plasmin activates the lymphangiogenic growth factors VEGF-C and VEGF-D. J Exp Med (2003) 1.35
Myeloid differentiation primary response gene (88)- and toll-like receptor 2-deficient mice are susceptible to infection with aerosolized Legionella pneumophila. J Infect Dis (2006) 1.34
Toll-like receptor 2 (TLR2) polymorphisms are associated with reversal reaction in leprosy. J Infect Dis (2008) 1.34
Transcriptional responses to fatty acid are coordinated by combinatorial control. Mol Syst Biol (2007) 1.33
Transport in two-dimensional paper networks. Microfluid Nanofluidics (2011) 1.32
Enhanced sensitivity of lateral flow tests using a two-dimensional paper network format. Anal Chem (2011) 1.30
Paired Ig-like receptors bind to bacteria and shape TLR-mediated cytokine production. J Immunol (2007) 1.29
Identification of a PRMT5-dependent repressor complex linked to silencing of human fetal globin gene expression. Blood (2010) 1.28
Generation of diversity in the innate immune system: macrophage heterogeneity arises from gene-autonomous transcriptional probability of individual inducible genes. J Immunol (2002) 1.28
ATAQS: A computational software tool for high throughput transition optimization and validation for selected reaction monitoring mass spectrometry. BMC Bioinformatics (2011) 1.28
Altered inflammatory responses in TLR5-deficient mice infected with Legionella pneumophila. J Immunol (2007) 1.28
The NLRP3 inflammasome detects encephalomyocarditis virus and vesicular stomatitis virus infection. J Virol (2011) 1.27
ATF3, an adaptive-response gene, enhances TGF{beta} signaling and cancer-initiating cell features in breast cancer cells. J Cell Sci (2010) 1.23
Genome-wide histone acetylation data improve prediction of mammalian transcription factor binding sites. Bioinformatics (2010) 1.22
A stop codon polymorphism of Toll-like receptor 5 is associated with resistance to systemic lupus erythematosus. Proc Natl Acad Sci U S A (2005) 1.21
CD4+ T cells and toll-like receptors recognize Salmonella antigens expressed in bacterial surface organelles. Infect Immun (2005) 1.20
Combining results of multiple search engines in proteomics. Mol Cell Proteomics (2013) 1.20
Bright field microscopy as an alternative to whole cell fluorescence in automated analysis of macrophage images. PLoS One (2009) 1.19
Total and putative surface proteomics of malaria parasite salivary gland sporozoites. Mol Cell Proteomics (2013) 1.19
Activating transcription factor 3 is a negative regulator of allergic pulmonary inflammation. J Exp Med (2008) 1.18
Enzymic, phylogenetic, and structural characterization of the unusual papain-like protease domain of Plasmodium falciparum SERA5. J Biol Chem (2003) 1.17
Identification of protein complexes in detergent-resistant membranes of Plasmodium falciparum schizonts. Mol Biochem Parasitol (2007) 1.17
Parallel evolution of transcriptome architecture during genome reorganization. Genome Res (2011) 1.14
New and improved proteomics technologies for understanding complex biological systems: addressing a grand challenge in the life sciences. Proteomics (2012) 1.14
Proteomics-driven cancer biomarker discovery: looking to the future. Curr Opin Chem Biol (2008) 1.13
ATF3 regulates MCMV infection in mice by modulating IFN-gamma expression in natural killer cells. Proc Natl Acad Sci U S A (2008) 1.13
Systems analysis identifies an essential role for SHANK-associated RH domain-interacting protein (SHARPIN) in macrophage Toll-like receptor 2 (TLR2) responses. Proc Natl Acad Sci U S A (2011) 1.13
A microfluidic device for multiplexed protein detection in nano-liter volumes. Anal Biochem (2008) 1.12
The Innate Immune Database (IIDB). BMC Immunol (2008) 1.11