Macrophages: gene co-expression modules
Long-lived mononuclear phagocytes replenished from monocytes; clear apoptotic cells and microbes, sample luminal antigen, and secrete cytokines that shape tissue repair, fibrosis, and mucosal tolerance.
SCUBA's reference network for Macrophages holds 150 gene modules covering 4,314 genes. Each module is a group of genes that rise and fall together across these cells, annotated with the biological process it most likely represents.
View the Macrophages network in SCUBA
Antibacterial (1)
- Antimicrobial Oxidative Defense · 39 genes
Antiviral (2)
- Antiviral ISG Response · 38 genes
- Type I Interferon · 22 genes
Cell cycle (11)
- Centrosome & DNA Repair · 43 genes
- DNA Replication Metabolism · 20 genes
- G1/S Transition · 10 genes
- Macrophage Proliferation · 24 genes
- Mitotic Chromosome Condensation · 13 genes
- Mitotic Spindle · 23 genes
- Mitotic Spindle Assembly · 43 genes
- Replication Chromatin Assembly · 31 genes
- Ribosome Biogenesis · 17 genes
- S-phase DNA Replication · 40 genes
- Spliceosomal snRNP · 39 genes
Cytoskeletal (4)
- Actin Cytoskeleton Organization · 29 genes
- Microtubule Organization · 23 genes
- Rho GTPase Signaling · 53 genes
- Rho GTPase Signaling · 33 genes
Developmental (1)
- Myeloid Differentiation Identity · 30 genes
ECM remodeling (2)
- MMP-driven ECM Remodeling · 21 genes
- SPP1 Tissue Remodeling · 28 genes
Housekeeping (45)
- Central Carbon Metabolism · 28 genes
- Chromatin Epigenetic Regulation · 30 genes
- Chromatin Regulatory Genes · 40 genes
- Chromatin Remodeling · 23 genes
- Chromatin Transcriptional Regulation · 28 genes
- Epigenetic Remodeling · 25 genes
- ER Membrane Homeostasis · 27 genes
- ER Protein Processing · 50 genes
- ERAD Proteasome · 25 genes
- General Cellular Maintenance · 22 genes
- Glycogen Metabolism · 33 genes
- Glycolytic Metabolism · 39 genes
- Mixed Housekeeping · 29 genes
- Mixed Regulatory Signaling · 39 genes
- mRNA Splicing Processing · 29 genes
- mRNA Splicing Processing · 38 genes
- Nuclear Pore Transport · 27 genes
- Post-transcriptional Regulation · 43 genes
- Pre-mRNA Splicing · 29 genes
- Pre-mRNA Splicing · 20 genes
- Proteasome UPS · 40 genes
- Proteasome UPS · 37 genes
- Protein Biogenesis · 32 genes
- Protein Homeostasis Mixed · 42 genes
- RAS-MAPK Signaling · 35 genes
- Ribosome Biogenesis · 26 genes
- RNA Processing & Repair · 40 genes
- RNA Processing Housekeeping · 29 genes
- RNA Processing Housekeeping · 41 genes
- RNA Processing Regulation · 24 genes
- RNA Processing Transport · 27 genes
- RNA Splicing Processing · 22 genes
- RNA Splicing Regulation · 22 genes
- Splicing Factor Regulation · 21 genes
- Transcriptional Elongation · 28 genes
- Transcriptional Kinase Regulation · 26 genes
- Transcriptional Regulation · 27 genes
- Transcriptional Regulation · 29 genes
- Transcriptional Regulation · 19 genes
- Transcriptional Repression · 32 genes
- Translation Initiation · 35 genes
- Ubiquitin Proteasome Regulation · 17 genes
- Ubiquitin-ERAD Proteostasis · 10 genes
- Ubiquitin-Proteasome Regulation · 13 genes
- Ubiquitin-Proteasome System · 27 genes
Inflammatory (17)
- Anti-inflammatory Response · 40 genes
- Early response genes · 48 genes
- Hypoxia-driven Activation · 42 genes
- IFN-gamma Response · 30 genes
- Immunoproteasome Induction · 21 genes
- Inflammasome Oxidative Stress · 42 genes
- Inflammasome Pyroptosis · 21 genes
- Inflammatory Monocyte Activation · 30 genes
- Inflammatory Monocyte Activation · 34 genes
- JAK-STAT Cytokine Response · 9 genes
- MAPK Stress Kinase · 21 genes
- NF-κB Activation · 42 genes
- NF-κB AP-1 Signaling · 30 genes
- NF-κB Effector Response · 9 genes
- NF-κB Inflammatory Activation · 9 genes
- NF-κB Inflammatory Activation · 28 genes
- TGF-beta Signaling · 18 genes
Innate immunity (10)
- Innate Antiviral Sensing · 35 genes
- Innate Immune Dampening · 19 genes
- Macrophage Identity · 24 genes
- MHC-II Antigen Presentation · 28 genes
- Monocyte Innate Signaling · 11 genes
- Myeloid Immune Checkpoint · 8 genes
- Myeloid Innate Signaling · 43 genes
- Myeloid Receptor Signaling · 38 genes
- Myeloid Signaling Regulation · 47 genes
- PI3K Lipid Signaling · 32 genes
Iron metabolism (1)
- Monocyte-Mac Iron Transport · 18 genes
Lipid metabolism (6)
- Alternative Activation Lipid · 33 genes
- Glycolytic Redox Metabolism · 27 genes
- Lipid-Sensing Transcriptional · 38 genes
- Macrophage Lipid Sensing · 21 genes
- Monocyte Lipid Metabolism · 23 genes
- Sphingolipid Membrane Homeostasis · 21 genes
Lysosomal & pahgocytosis (12)
- Autophagy Lysosomal · 16 genes
- Autophagy Lysosomal Regulation · 31 genes
- Autophagy Vesicle Trafficking · 35 genes
- Efferocytosis Anti-inflammatory · 27 genes
- Endolysosomal Trafficking · 26 genes
- ER Protein Quality Control · 27 genes
- Fc Receptor Phagocytosis · 19 genes
- Lysosomal Hydrolase Program · 44 genes
- Macrophage Endocytic Signaling · 29 genes
- MITF Lysosomal Program · 34 genes
- Monocyte Phagocytic Identity · 16 genes
- Phagocytic Endolysosomal · 36 genes
Migration & adhesion (2)
- Cytoskeletal Migration · 8 genes
- Macrophage Migration · 21 genes
Mitochondrial & OxPhos (9)
- ATP Synthase Complex · 23 genes
- Complex I / NADH Dehydrogenase · 40 genes
- Mitochondrial Biogenesis · 47 genes
- Mitochondrial Complex Assembly · 9 genes
- Mitochondrial Housekeeping · 20 genes
- Mitochondrial OXPHOS · 37 genes
- Mitochondrial OXPHOS · 18 genes
- Oxidative Metabolic Program · 38 genes
- Oxidative Phosphorylation · 16 genes
Stress (10)
- DNA Damage Repair · 36 genes
- DNA Damage Response · 28 genes
- ER Morphology Stress · 17 genes
- ER Stress Response · 23 genes
- ER Stress UPR · 29 genes
- Hypoxia Stress Response · 43 genes
- Integrated Stress Response · 26 genes
- NRF2 Oxidative Stress · 36 genes
- Osmotic Stress Response · 34 genes
- Stress Response Transcription · 17 genes
Technical artifact (1)
- Low-Coherence Mixed · 17 genes
Tissue homeostasis (2)
- Resident Mac Identity · 25 genes
- Resident Mac Niche · 31 genes
Vesicular traficking (14)
- Autophagy Vesicular Trafficking · 41 genes
- Endolysosomal Trafficking · 30 genes
- Endosomal Membrane Trafficking · 29 genes
- Endosomal Rab Trafficking · 24 genes
- Endosomal Vesicle Trafficking · 57 genes
- ER Protein Glycosylation · 30 genes
- ER Protein Translocation · 31 genes
- ER-Golgi Trafficking · 32 genes
- ER-Golgi Trafficking · 14 genes
- ER-Lysosome Trafficking · 30 genes
- Golgi Vesicle Trafficking · 33 genes
- Golgi-Endosome Trafficking · 35 genes
- RAB-mediated Trafficking · 36 genes
- Retromer Endosomal Sorting · 29 genes