Supplemental Figure 1 Supplemental Figure 2 Supplemental Figure 3 Supplemental Figure 4 Supplemental Figure 5 Supplemental Figure 6 Supplemental Figure 7 Supplemental Figure 8 Table S1: List of official gene names, aliases and synonyms for genes mentioned throughout the manuscript (in the order in which they are cited) Gene Name Aliases/Synonyms Mafb V-maf musculoaponeurotic MAF BZIP Transcription Factor B fibrosarcoma oncogene family protein B Dab2 Disabled Homolog 2, Mitogen- DAB2, Adaptor Protein Responsive Phosphoprotein Nfkbiz Nuclear factor of kappa light IkB-Zeta; IL-1 Inducible Nuclear polypeptide gene enhancer in B Ankyrin-Repeat Protein cells inhibitor, zeta Hivep2 Human immunodeficiency virus C-Myc Intron Binding Protein 1; type I enhancer binding protein 2 MHC-Binding Protein 2 Skil SKI-like SKI Like Proto-Oncogene

Egr1 Early growth response 1 Nerve Growth Factor-Induced Protein A/ Zinc Finger Protein 225 Rel Reticuloendotheliosis oncogene REL Proto-Oncogene, NF-KB Subunit; C-Rel Plek pleckstrin Platelet 47 KDa Protein

Rbpj Recombination signal binding Renal Carcinoma Antigen NY-REN- protein for immunoglobulin kappa 30 J region Odc1 Ornithine decarboxylase, structural 1 Clec7a C-type lectin domain family 7, Dendritic Cell-Associated C-Type member a Lectin-1; Dectin-1 Zfp414 Zinc finger protein 414

Hmg20b High mobility group 20B Structural DNA-Binding Protein BRAF35; BRCA2-associated factor 35; HMG Domain-Containing Protein Hmgx2; Hmgxb2; Smarce1r Drap1 Dr1 associated protein 1 Negative Cofactor 2 Alpha; Dr1- Associated Corepressor Tsc22d4 TSC22 domain family, member 4 TSC22-Related-Inducible Leucine Zipper Protein 2; Thg-1pit Bmyc Brain expressed myelocytomatosis oncogene Xcr1 Chemokine (C motif) receptor 1 CCXCR1; Lymphotactin Receptor; GPR5

1 Irf8 Interferon regulatory factor 8 Interferon Consensus Sequence Binding Protein 1 (ICSBP1); Interferon Consensus Sequence Binding Protein (ICSBP)

Id2 Inhibitor of DNA binding 2 Inhibitor Of Differentiation 2; Class B Basic Helix-Loop-Helix Protein 26; Cell Growth-Inhibiting Gene 8 L-myc V-myc avian myelocytomatosis MYCL; BHLHe38 viral oncogene lung carcinoma derived Notch2 Notch2 Neurogenic Locus Notch Homolog Protein 2 Tlr3 Toll-like receptor 3

Clec9a C-type lectin domain family 9, DNGR-1 member a Ly75 Lymphocyte antigen 75 C-Type Lectin Domain Family 13 Member B; DEC-205 Zbtb46 Zinc finger and BTB domain Zinc Finger Protein 340 containing 46 Irf4 Interferon Regulatory Factor 4

Adgre1 Adhesion G protein-coupled Egf-Like Module Containing, receptor E1 Mucin-Like, Hormone Receptor- Like Sequence 1; F4/80 Cx3cr1 C-X3-C Motif Chemokine Receptor Fractalkine Receptor 1 Clec12a C-Type Lectin Domain Family 12 Dendritic Cell-Associated Lectin 2 Member A Esam Endothelial Cell Adhesion Endothelial Cell-Selective Adhesion Molecule Molecule Ednrb Endothelin Receptor Type B Endothelin Receptor Non-Selective Type Hmox1 Heme Oxygenase 1 Heat Shock Protein, 32-KD

Tfrc Transferrin Receptor TFR1

Fth1 Ferritin Heavy Chain 1 Apoferritin

Ftl1 Ferritin Light Chain L Apoferritin

Slc40a1 Solute Carrier Family 40 Member 1 Ferroportin 1

2 Abca1 ATP Binding Cassette Subfamily A Cholesterol Efflux Regulatory Member 1 Protein Apoe Apolipoprotein E

Igf1 Insulin Like Growth Factor 1 Somatomedin-C

Retnla Resistin like alpha

Maf MAF BZIP Transcription Factor Transcription Factor Maf

Lrp6 LDL Receptor Related Protein 6 Low Density Lipoprotein Receptor- Related Protein 6 Itm2b Integral 2B Transmembrane Protein BRI

Man1a Mannosidase Alpha Class 1A Man9-Mannosidase Member 1 Fcgr2b Fc Fragment Of IgG Receptor IIb Fc Fragment Of IgG, Low Affinity IIb, Receptor For (CD32) Cfh Complement Factor H Factor H Mrc1 Mannose Receptor C-Type 1 CD206 Antigen

Clec10A C-Type Lectin Domain Containing Macrophage Lectin 2 (Calcium 10A Dependent); CD301 Mgl2 Macrophage galactose N-acetyl- CD301b galactosamine specific lectin 2 Cd209f CD209f antigen SIGNR8

Cd209d CD209d antigen SIGNR3

Cd209b CD209b antigen SIGNR1

Cd209a CD209a antigen DC-SIGN

Arg1 Arginase 1 Liver-Type Arginase

Chil3 Chitinase-like 3 Ym1

Lyve1 Lymphatic Vessel Endothelial Hyaluronic Acid Receptor Hyaluronan Receptor 1 Clec2d C-type lectin domain family 2, Lectin-Like Transcript 1 member d Cd163 CD163 antigen Hemoglobin Scavenger Receptor

3 Stab1 Stabilin 1 Common Lymphatic Endothelial And Vascular Endothelial Receptor-1/FEEL1 Timd4 T Cell Immunoglobulin And Mucin TIM4 Domain Containing 4 Mertk C-mer proto-oncogene tyrosine Receptor Tyrosine Kinase MerTK kinase Cltc Clathrin Heavy Chain Clathrin, Heavy Polypeptide-Like 2

Clta Clathrin Light Chain A

Ap2a2 Adaptor-related protein complex Clathrin- 2, alpha 2 subunit Associated/Assembly/Adaptor Protein, Large, Alpha 2 Ap2b1 Adaptor Related Protein Complex adaptor-related protein complex 2, 2 Alpha 1 Subunit beta 1 subunit Epidermal growth factor receptor Eps15 pathway substrate 15

Sh3glb1 SH3-domain GRB2-like B1 Bax-Interacting Factor 1 (endophilin) Snx5 5

Snx2 Sorting nexin 2 Hif1a Hypoxia inducible factor 1, alpha Basic-Helix-Loop-Helix-PAS Protein subunit MOP1 Arnt Aryl hydrocarbon receptor nuclear Hypoxia-Inducible Factor 1-Beta translocator Epas1 Endothelial PAS domain protein 1 HIF-1-Alpha-Like Factor; PAS Domain-Containing Protein 2 Egln1 Egl-9 family hypoxia-inducible HIF-Prolyl Hydroxylase 2 factor 1 Egln2 Egl-9 family hypoxia-inducible Hypoxia-Inducible Factor Prolyl factor 2 Hydroxylase 1 Egln3 Egl-9 family hypoxia-inducible Hypoxia-Inducible Factor Prolyl factor 3 Hydroxylase 3 Vhl Von Hippel-Lindau tumor Von Hippel-Lindau Tumor suppressor Suppressor, E3 Ubiquitin Protein Ligase Setd2 SET domain containing 2 Il10 Interleukin 10 T-Cell Growth Inhibitory Factor Tgfb1 Transforming growth factor, beta 1

4 Il1rn Interleukin 1 receptor antagonist Intracellular Interleukin-1 Receptor Antagonist (IcIL-1ra) Ifna1 Interferon alpha 1

Ifnb1 Interferon beta 1, fibroblast

Ifng Interferon gamma

Ifnk Interferon kappa

Il6 Interleukin 6

Tnfa Tumor necrosis factor

il1b Pro-Interleukin 1 beta

Tnfaip3 Tumor necrosis factor, alpha- Tumor Necrosis Factor Inducible induced protein 3 Protein A20 Lgals3 Lectin, galactose binding, soluble 3 Galectin 3

Rgs1 Regulator of G-protein signaling 1 Epididymis Secretory Protein Li 87

Gpnmb Glycoprotein (transmembrane) Osteoactivin nmb Ccrl2 Chemokine (C-C motif) receptor- Putative MCP-1 Chemokine like 2 Recepto Pparg Peroxisome proliferator activated receptor gamma Mpeg1 Macrophage expressed gene 1 Perforin 2

Anxa1 Annexin A1 Phospholipase A2 Inhibitory Protein Gpx1 Glutathione peroxidase 1

Prdx1 Peroxiredoxin 1 Thioredoxin-Dependent Peroxide Reductase 2 Lrp1 Low density lipoprotein receptor- Apolipoprotein E Receptor related protein 1 Fabp4 Fatty acid binding protein 4, Adipocyte-Type Fatty Acid-Binding adipocyte Protein, aP2 Cxcl1 Chemokine (C-X-C motif) ligand 1 Neutrophil-Activating Protein 3

Cd44 CD44 antigen Hyaluronate Receptor

5 Adam8 A disintegrin and metallopeptidase domain 8 Atp6v0d2 ATPase, H+ transporting, lysosomal V0 subunit D2 Atp6v1a ATPase, H+ transporting, lysosomal V1 subunit A Atp6v1b2 ATPase, H+ transporting, lysosomal V1 subunit B2 Lipa Lysosomal acid lipase A Cholesterol Ester

Igf2r Insulin-like growth factor 2 receptor Ctsl Cathepsin L

Ctsd Cathepsin D

Psap Prosaposin Sphingolipid Activator Protein-1

Plin2 Perilipin 2 Adipose Differentiation-Related Protein Cd36 CD36 molecule Fatty Acid Translocase; Scavenger Receptor Class B, Member 3 Lpl Lipoprotein lipase

Slc27a1 Solute carrier family 27 (fatty acid Fatty Acid Transport Protein 1; transporter), member 1 Long-Chain Fatty Acid Transport Protein 1 Nceh1 Neutral cholesterol ester Arylacetamide Deacetylase-Like 1 hydrolase 1 Soat1 Sterol O-acyltransferase 1 Acyl-Coenzyme A: Cholesterol Acyltransferase Myo1E Myosin IE Unconventional Myosin 1E

Tpm4 Tropomyosin 4 Epididymis Secretory Protein Li 108 Flna Filamin, alpha Endothelial Actin-Binding Protein; Non-Muscle Filamin Vim Vimentin

Mmp12 Matrix metallopeptidase 12

Timp2 Tissue inhibitor of Testicular Secretory Protein Li 57 metalloproteinase 2

6 Nos2 Nitric oxide synthase 2, inducible Inducible NO Synthase

Cd180 CD180 antigen Radioprotective 105 KDa Protein

Ido Indoleamine 2,3-dioxygenase

Marco Macrophage receptor with Scavenger Receptor Class A, collagenous structure Member 2; Macrophage Receptor MARCO Il27 Interleukin 27

Il23a Interleukin 23, alpha subunit p19

Il12b Interleukin 12b

Il12a Interleukin 12a

Socs1 Suppressor of cytokine signaling 1 STAT-Induced STAT Inhibitor 1; STAT Induced SH3 Protein 1 Irf5 Interferon regulatory factor 5

Pcx Pyruvate carboxylase Pyruvate Carboxylase, Mitochondrial Egr2 Early growth response 2 Zinc Finger Protein Krox-20 Cd38 CD38 antigen ADP-Ribosyl Cyclase 1; Cyclic ADP- Ribose Hydrolase 1 Plin2 Perilipin 2 Adipose Differentiation-Related Protein; Adipophilin Acsl1 Acyl-CoA synthetase long-chain Fatty-Acid-Coenzyme A Ligase, family member 1 Long-Chain 2; Long-Chain Fatty Acid-CoA Ligase 2; Palmitoyl-CoA Ligase 1 Bag6 BCL2-associated athanogene 6 BAG Family Molecular Chaperone Regulator 6; HLA-B-Associated Transcript 3 Dhcr7 7-dehydrocholesterol reductase Putative Sterol Reductase SR-2; Delta-7-Dehydrocholesterol Reductase Far1 Fatty acyl CoA reductase 1 Short Chain Dehydrogenase/Reductase Family 10E, Member 1 Plxnb2 Plexin B2

7 Ptprj Protein tyrosine phosphatase, Protein-Tyrosine Phosphatase Eta receptor type, J

8