Supplemental Table I: Top 100 differentially expressed between human GM- MDM vs MDM and murine GM-BMM vs BMM.

Human Murine Fold change Fold change Symbol GM vs M Gene Symbol GM-BMM vs BMM SERPINB2 -354.7 Ccr7 4905.4 HBB 193.5 Aldh1a2 2530.8 CCL1 129.2 Gm5483 2328.5 SOBP 120.9 Stfa1 1768.5 DLL1 -119.8 Car2 1658.1 INHBA 112.0 Ear7 1373.8 CD2 105.9 Epx 1320.6 CD1B 96.8 Clu 1100.4 MAOB 85.3 Stfa2l1 1075.3 HBG1 83.9 BC100530 1061.0 CDH1 80.8 Adra2a 1006.0 KCNK17 79.0 Pdcd1lg2 964.5 CD163L1 -78.0 Nov 939.8 TACSTD2 71.8 Sema7a 926.6 TMEM130 71.4 Ceacam10 908.9 BC037919 65.9 Adam23 848.9 FA2H 62.9 Apol7c 813.2 NANOS1 61.5 Ear3 771.8 HBD 59.6 Ptx3 767.7 CTTNBP2 -57.9 Klrb1b 764.5 CD1E 57.4 Stfa2 759.2 TCL1A 56.1 Fscn1 732.1 IGF1 -56.0 Ear6 715.4 ALDH1A2 55.3 Ear10 680.7 MRO -54.3 Aqp3 679.4 EDNRB -53.7 Vat1l 640.0 COL23A1 -52.3 Fndc5 638.8 SYTL1 50.7 Ear1 603.9 FCGBP -50.1 Mucl1 601.6 SEPP1 -48.5 AI854517 597.8 CYP27B1 47.2 Stfa3 592.8 SPINK1 43.4 Asprv1 566.4 LGMN -42.2 Cbln1 563.1 C20orf26 -41.4 D630039A03Rik 553.4 CD28 -40.6 Socs2 553.4 LRRC32 40.4 Ear11 540.3 CD93 -40.4 Mgll 533.7 LGI2 -39.8 Asgr2 525.1 CCR6 39.4 Car4 512.6 MGC24103 -38.9 Ccdc80 490.9 TSPAN2 38.3 Klk1b9 484.9 OSTbeta 38.1 P2rx5 461.3 MYLK2 -38.0 Tcea3 456.0 Supplemental Table I Cont’d CACNA2D3 -36.3 Prss34 452.4 TMEM37 -35.9 Cd209d 430.3 C10orf116 -34.2 Hepacam2 424.8 LTB 34.2 Hr 424.6 BC042017 -33.9 Slc6a4 422.0 BEAN1 32.2 Gpr120 417.2 GUCY1B3 32.1 Tnfrsf9 407.0 ANXA3 32.0 Nags 403.3 FBXO2 31.6 Kif1a 384.1 IGFBP5 31.4 Ccl17 380.8 IL22RA2 30.9 Flrt3 379.4 P2RY14 30.8 Prg2 378.4 CH25H 29.1 Ldhc 369.5 SLC16A2 28.9 Foxf2 366.8 TSKU 28.8 Ramp3 352.2 FAIM2 28.7 Perp 348.3 EDN1 28.3 Amica1 344.5 EDG1 -28.2 Thy1 341.2 CCL24 28.1 Mcpt8 340.2 DSP 28.1 Il28ra 330.9 BX647543 -28.0 Mgl2 322.6 RGMA -27.9 Klk1b27 315.9 SMPD3 27.9 Gimap1 312.4 GLYATL1 -27.7 F7 309.7 FST 27.4 Esyt3 300.4 BC004287 -27.2 Anxa8 300.2 ARC 27.2 Slc6a12 300.1 ABLIM3 -27.1 Edn1 300.1 MMP12 26.5 F10 287.6 IL3RA 26.3 Arg2 278.9 PDK4 -26.3 1100001G20Rik 276.8 IGFBP4 -26.2 Gm8221 269.2 CES1 25.9 Retnlg 267.3 XLKD1 -25.3 Serpina3g 264.8 CLDN14 25.2 1600029D21Rik 263.1 CLC 24.5 Enah 256.2 HS3ST1 -24.2 Clec2l 249.7 THBD -23.9 Fabp1 249.6 ECSM2 23.6 Epcam 246.9 CYP3A7 23.5 Hgfac 245.5 GPRC5B -23.4 Il1f9 241.8 ADORA3 -23.3 Cacnb3 236.1 SCN4B 23.2 Itgax 230.2 IQCD -23.2 Rasgrp1 229.8 SV2B -23.1 Ciita 226.7 AQP3 22.9 Cfb 215.1 LONRF2 22.7 Cldn1 213.2 NPR1 22.4 Pglyrp1 209.8 ARMC9 -22.3 Nudt17 205.4 Supplemental Table I Cont’d LOXL1 -22.2 Slc26a10 205.0 STEAP4 22.2 Prg3 203.8 SORBS1 22.2 Cish 203.1 GSDM1 -21.8 Inhba 202.3 C1orf106 21.6 Cpa3 201.2 GALNT12 21.5 Tnfaip8l3 198.3 NRG1 -21.5 Syt7 197.0 CDX1 21.5 Cd209c 195.7 Supplemental Table II: Top 50 common pathways differentially regulated between human GM-MDM vs MDM and murine GM-BMM vs BMM using the NCI-Nature pathway database.

Pathways Biomolecules in Human P-value Biomolecules in Mouse P-value AP-1 transcription factor ATF3, BCL2L11, CCND1, CDKN1B, 5.05E-07 CCND1, CDK1, CDKN2A, COL1A2, CYR61, 3.28E-09 network CDKN2A, EDN1, EGR1, ESR1, DUSP1, EDN1, EGR1, ESR1, FABP4, FOS, GATA2, HIF1A, IL10, IL4, IL6, JUN, FOSL2, GATA2, GJA1, IL10, IL2, IL4, IL5, IL6, MAF, MT2A, MYB, TCF4, TCF7L2, JUN, JUNB, JUND, MAF, MAFG, MMP9, MYB, TIMP1 PLAU, TCF4, TCF7L2, TIMP1

Calcineurin-regulated BATF3, CBLB, EGR1, EGR2, EGR3, 8.11E-07 BATF3, CDK4, DGKA, EGR1, EGR2, EGR3, 5.53E-07 NFAT-dependent GATA3, IL2RA, IL4, IRF4, JUN, FOS, GATA3, GBP3, IL2, IL2RA, IL4, IL5, IRF4, transcription in MAF, PPARG, PTPRK, RNF128, JUN, JUNB, MAF, PRKCQ, PTGS2, PTPN1, lymphocytes TBX21, TNF TLE4

HIF-1-alpha transcription ABCB1, ABCG2, ADM, BHLHE41, 3.85E-06 ADM, BHLHE40, CXCL12, CXCR4, DEC1, 1.29E-04 factor network BNIP3, CXCL12, CXCR4, EDN1, EDN1, EGLN3, FOS, FURIN, GATA2, GCK, EGLN3, GATA2, HIF1A, HMOX1, HK1, HMOX1, ID2, ITGB2, JUN, NT5E, JUN, NDRG1, NT5E, PFKFB3, PFKFB3, SMAD3, TF, VEGFA SERPINE1, TF amb2 signaling ELANE, FGR, GP1BA, IL6, JAM2, 1.79E-05 CTGF, CYR61, ELANE, FGR, FN1, FYN, 1.07E-13 LAMA2, LAMA3, LAMB1, LAMB2, GP1BA, HP, ICAM1, ICAM2, IL6, ITGB2, JAM2, LRP1, MMP2, MPO, PLAT, PRKCZ, JAM3, LAMA2, LAMA3, LAMA5, LAMB2, TNF, YES1 LAMB3, LPA, LRP1, LYN, MMP2, MMP9, MPO, NFKB1, PLAU, PLAUR, RHOA, SELPLG, SRC, THY1, YES1

Syndecan-4-mediated ADAM12, CCL5, CXCL12, CXCR4, 2.47E-05 ACTN1, CCL5, CXCL12, CXCR4, FGF6, FGFR1, 1.54E-07 signaling events FGFR1, LAMA3, MDK, SDC4, TFPI, FN1, LAMA3, MDK, MMP9, PRKCA, PRKCD, THBS1, TNC RHOA, SDC4, TFPI, THBS1, TNC Supplemental Table II Cont’d C-MYB transcription ADA, ADORA2B, BIRC3, CA1, 3.99E-05 ADORA2B, ANPEP, BIRC3, CASP6, CCNB1, 1.64E-06 factor network CCND1, CD34, CDKN1B, CDKN2A, CCND1, CD34, CDK6, CDKN2A, CEBPB, CEBPD, ELANE, GATA1, GATA3, COL1A2, ELANE, ETS2, GATA1, GATA3, KITLG, LEF1, MAF, MPO, MYB, HIPK2, KIT, KITLG, LEF1, MAF, MPO, MYB, SLC1A5, ZFHX3 PIM1, PRTN3, PTGS2, TFEC, TOM1, WNT1, ZFPM1 Direct p53 effectors ATF3, BCL2A1, BNIP3L, C13orf15, 4.06E-05 BCL2L1, BCL2L14, BID, BTG2, CASP6, CAV1, 1.34E-03 CAV1, COL18A1, CX3CL1, DDIT4, CCNB1, CD82, COL18A1, CX3CL1, DUSP1, DUSP5, HGF, HIC1, JMY, JUN, EGFR, EPHA2, FAS, GADD45A, GDF15, HGF, MET, MMP2, NDRG1, PERP, PLK3, HIC1, IRF5, JUN, MET, MMP2, PERP, PMAIP1, PPM1J, PPP1R13B, PRDM1, RB1, PML, POU4F1, PPM1J, PRDM1, SCN3B, SESN1, SERPINE1, TP53INP1, VCAN, VDR VCAN, VDR IL12-mediated signaling CCL3, CCL4, CD247, EOMES, 5.99E-05 CCL3, CCL4, CCL4L1, CCL4L2, CCR5, CD3D, 2.01E-11 events GADD45B, GZMB, IL18R1, IL1B, CD8A, FOS, GADD45B, GADD45G, IL12A, IL1R1, IL2RA, IL4, MAP2K6, IL12B, IL12RB2, IL18R1, IL18RAP, IL1B, SOCS1, STAT4, TBX21, TRA@ IL1R1, IL2, IL2RA, IL2RG, IL4, JAK2, MAP2K6, NFKB1, NFKB2, RELB, RIPK2, SOCS1, STAT1, STAT5A, STAT6, TYK2 IL1-mediated signaling IL1A, IL1B, IL1R1, IL1R2, IL1RAP, 8.20E-05 IL1A, IL1B, IL1R1, IL1R2, IL1RN, JUN, 3.26E-02 events IL1RN, JUN, MAP2K6, MYD88, MAP2K6, MYD88, NFKB1 PRKCZ, SQSTM1 Arf6 trafficking events ADRB2, ASAP2, CD59, CDH1, CPE, 1.16E-04 ACAP1, ADRB2, ASAP2, CDH1, CLTC, CPE, 5.87E-04 EDNRB, IL2RA, ITGA6, ITGA7, EDNRB, IL2RA, ITGA1, ITGA11, ITGA6, ITGA9, ITGAV, JUP, PLD1 ITGA8, ITGA9, ITGAV, JUP, PIP5K1C Regulation of nuclear CBY1, CCND1, CCND2, CDH1, 1.85E-04 BCL9, CCND1, CDH1, CDKN2A, COX2, CYR61, 1.17E-04 beta catenin signaling CDKN2A, CDX1, CTNNBIP1, ID2, IGF2BP1, JUN, KLF4, LEF1, MDFIC, MITF, and target gene IGF2BP1, JUN, KLF4, KRT1, LEF1, MMP2, MMP9, TBL1XR1, TCF3, TCF4, TCF7, transcription MMP2, SP5, TCF4, TCF7L2, VCAN TCF7L1, TCF7L2, TLE2, TLE4, VCAN Signaling events CAV1, CDH5, EPAS1, FES, FLT1, 5.77E-04 CAV1, CDH5, EPAS1, FLT1, FYN, GRB10, 1.91E-07 mediated by VEGFR1 HIF1A, ITGAV, MAPK11, NOS3, ITGAV, KDR, MAPK11, NEDD4, NOS3, NRP1, and VEGFR2 NRP2, S1PR1, SHB, SHC2, YES1 PDK1, PDPK1, PRKACA, PRKCA, RHOA, S1PR1, SHC1, SHC2, SRC, VEGFA, VEGFB, VEGFC, VHL, YES1 Supplemental Table II Cont’d ATF-2 transcription ATF3, CCND1, COL24A1, CSRP2, 6.17E-04 ARG1, BCL2L1, CCNA2, CCND1, CDK4, 5.71E-05 factor network DUSP10, DUSP5, ESR1, IL6, JDP2, COL24A1, DUSP1, ESR1, FOS, GADD45A, IL6, JUN, MAPK11, MMP2, RB1 JDP2, JUN, JUNB, JUND, MAPK11, MMP2, PLAU, PRKCA, SOCS3 Regulation of CCND1, CCND2, CCND3, CDKN1B, 6.70E-04 ABL1, BGLAP, CCNA2, CCND1, CDK4, CDK6, 5.16E-03 retinoblastoma CDKN2A, CEBPD, JUN, MAPK11, CDKN2A, CEBPB, GSC, ID2, JUN, MAPK11, MEF2C, MET, PPARG, RB1, MEF2C, MET, MITF, RUNX2, SKP2 RUNX2, SFTPD IL27-mediated signaling EBI3, GATA3, IL1B, IL27RA, IL6, 7.11E-04 GATA3, IL12A, IL12B, IL12RB2, IL1B, IL2, 6.17E-05 events STAT4, TBX21, TNF IL27RA, IL6, JAK2, STAT1, STAT5A, TYK2 CXCR4-mediated CD247, CXCL12, CXCR4, FGR, 8.79E-04 CD3D, CXCL12, CXCR4, FGR, FYN, ITGA1, 1.78E-05 signaling events FOXO1, GNG2, ITGA6, ITGA7, ITGA11, ITGA6, ITGA8, ITGA9, ITGAV, JAK2, ITGA9, ITGAV, LIMK1, PIK3R3, LYN, MMP9, PDK1, PDPK1, PIK3CD, PIK3R2, PIK3R5, PIK3R6, PLCB1, PRKCZ, PIK3R3, PIK3R6, PLCB2, RHOA, RHOB, RHOC, TRA@, YES1 SRC, STAT1, STAT5A, STAT5B, VAV1, YES1 TNF signaling BIRC3, CAV1, MAP3K5, PRKCZ, 1.11E-03 BIRC2, BIRC3, CAV1, GCK, GCKR, MAP4K2, 7.5E-03 pathway SMPD1, SQSTM1, TNF, TNFAIP3, MAP4K5, NFKB1, RFFL, STAT1, TNFAIP3, TNFRSF1A, TNFRSF1B, TRAF1 TNFRSF1B, TRAF1 IL12 signaling mediated CD247, CD28, ETV5, IL18R1, 1.33E-03 CD28, CD3D, CD80, CD86, ETV5, FOS, IL18R1, 4.36E-04 by STAT4 IL2RA, JUN, STAT4, TBX21, TRA@ IL18RAP, IL2, IL2RA, JUN Nectin adhesion pathway CDH1, CLDN1, F11R, ITGAV, 1.51E-03 CDH1, CLDN1, F11R, ITGAV, MLLT4, 8.83E-04 MLLT4, PDGFRB, PVR, PVRL1 PDGFRB, PIP5K1C, PVRL1, PVRL2, SRC, VAV2 Signaling events CAV1, CDH2, CSF1, FCGR2A, FGR, 1.82E-03 CAV1, CDH2, CSF1, EGFR, FGR, FYN, ITGA2B, 2.61E-07 mediated by PTP1B INSR, ITGA2B, LAT, PDGFRB, JAK2, LAT, LEPR, LYN, PDGFRB, PTPN1, SPRY2, YES1 RHOA, SHC1, SOCS3, SPRY2, SRC, STAT5A, STAT5B, TYK2, YES1 Validated transcriptional CCND1, CDKN2A, HMOX1, IL6, 1.98E-03 ATF4, BGLAP, CCNA2, CCND1, CDKN2A, 1.06E-09 targets of AP1 family JUN, LAMA3, MMP2, NOS3, THBD COL1A2, DCN, FOSL2, GJA1, HMOX1, IL6, members Fra1 and Fra2 JUN, JUNB, JUND, LAMA3, MMP2, MMP9, NOS3, PLAU, PLAUR, THBD a6b1 and a6b4 Integrin CD9, CDH1, IL1A, ITGA6, LAMA2, 2.28E-03 CASP7, CDH1, COL17A1, EGFR, ERBB2, 1.09E-05 signaling LAMA3, LAMB1, LAMB2, MET, ERBB3, IL1A, ITGA6, LAMA2, LAMA3, PMP22 LAMA5, LAMB2, LAMB3, MET, PMP22, PRKCA, RXRA, SHC1 Supplemental Table II Cont’d CD40/CD40L signaling BIRC3, CBLB, CD40, IL4, JUN, 2.34E-03 BCL2L1, BIRC2, BIRC3, IL4, JUN, MAP3K14, 4.29E-04 MAPK11, TNFAIP3, TRAF1 MAPK11, NFKB1, NFKBIA, STAT5A, TNFAIP3, TRAF1 Regulation of RhoA ARAP3, ARHGAP6, ARHGAP8, 2.68E-03 AKAP13, ARAP1, ARAP3, ARHGAP4, 2.75E-08 activity BCR, CDKN1B, DLC1, FARP1, ARHGAP9, ARHGDIG, ARHGEF10, OBSCN, RGNEF, SRGAP1 ARHGEF10L, ARHGEF11, ARHGEF17, ARHGEF18, BCR, ECT2, FARP1, GRLF1, MCF2L, NET1, OPHN1, RHOA, VAV1, VAV2, VAV3 IL6-mediated signaling A2M, CEBPD, FOXO1, GAB2, IL6, 3.12E-03 A2M, BCL2L1, CEBPB, FOS, IL6, JAK2, JUN, 5.26E-06 events JUN, LMO4, MAP2K6, MAPK11, JUNB, LBP, LMO4, MAP2K6, MAPK11, MITF, TIMP1 PRKCD, SOCS3, STAT1, TIMP1, TYK2, VAV1 Class I PI3K signaling ARAP3, FGR, FOXO3, LAT, 3.25E-03 ARAP3, ARHGEF7, CYTH1, DAPP1, FGR, FYN, 1.21E-06 events PIK3R3, PIK3R5, PIK3R6, INPPL1, LAT, LYN, PDK1, PDPK1, PIK3CD, PLEKHA1, PLEKHA2, PREX1, PIK3R2, PIK3R3, PIK3R6, PLEKHA1, PREX1, YES1 RHOA, SRC, TIAM1, VAV1, YES1 Thromboxane A2 FGR, GNG2, MAPK11, NOS3, 3.71E-03 ADRBK2, EGFR, FGR, FYN, GNA12, GNA15, 4.02E-07 receptor signaling PIK3R5, PIK3R6, PRKCZ, PTGIR, ICAM1, LYN, MAPK11, NOS3, PIK3R6, PLCB2, TBXA2R, TGM2, YES1 PRKACA, PRKCA, PRKCD, PRKCE, PRKCH, PRKCQ, PTGIR, RHOA, SRC, VCAM1, YES1 HIF-2-alpha transcription ABCG2, ADORA2A, EFNA1, 4.97E-03 ADORA2A, BHLHE40, DEC1, EFNA1, EGLN3, 1.4E-03 factor network EGLN3, EPAS1, FLT1, FXN, EPAS1, FLT1, FXN, KDR, MMP14, VEGFA, SERPINE1 VHL RhoA signaling pathway CDKN1B, JUN, LIMK1, MAL, 6.19E-03 CIT, CYR61, EZR, F2RL2, FOS, JUN, MAL, 1.3E-04 MAP2K6, MAPK12, PLD1, PRKCZ, MAP2K6, MAPK12, MKL1, MYL2, PIP5K1B, SLC9A1 PIP5K1C, RHOA Syndecan-1-mediated CCL5, HGF, HPSE, MET, MMP7 8.51E-03 CCL5, HGF, LAMA5, MET, MMP9, PRKACA 1.75E-04 signaling events VEGFR1 specific signals CAV1, CD2AP, FLT1, HIF1A, 8.74E-03 CAV1, FLT1, NOS3, NRP1, PDK1, PDPK1, PGF, 4.29E-04 NOS3, NRP2, SHC2 PRKACA, PRKCA, SHC2, VEGFA, VEGFB Regulation of p38-alpha DUSP10, DUSP16, FGR, MAP2K6, 8.74E-03 CCM2, DUSP1, FGR, FYN, LYN, MAP2K6, 5.22E-03 and p38-beta MAP3K12, MAPK11, YES1 MAPK11, OSM, SRC, YES1 Supplemental Table II Cont’d Regulation of nuclear ATF3, ESR1, FOXO1, FOXO3, 9.63E-03 CDK4, CEBPB, CITED1, COL1A2, ESR1, FOS, 3.66E-04 SMAD2/3 signaling GATA3, IL10, IRF7, ITGB5, JUN, GATA3, GSC, IFNB1, IL10, IL5, IRF7, ITGB5, MEF2C, RUNX2, SERPINE1, VDR JUN, LAMC1, MEF2C, RBL1, RUNX2, RUNX3, SMAD3, TCF3, TGIF2, VDR PDGFR-beta signaling ACTA2, CTTN, CYFIP2, DOCK4, 1.03E-02 ABL1, ARAP1, CTTN, EPS8, FGR, FOS, FYN, 1.1E-08 pathway EPS8, FGR, ITGAV, JUN, LRP1, GRB10, GRLF1, ITGAV, JAK2, JUN, JUND, MLLT4, PDGFB, PDGFRB, PIK3R3, LRP1, LYN, MLLT4, NCKAP1, PDGFRB, PIK3R5, PIK3R6, PPP2R2B, S1PR1, PIK3CD, PIK3R2, PIK3R3, PIK3R6, PLA2G4A, YES1 PRKCA, PRKCD, PRKCE, PTPN1, PTPN2, PTPRJ, RAB4A, RHOA, S1PR1, SHC1, SLA, SLC9A3R2, SPHK1, SRC, STAT1, FGF signaling pathway CDH1, CDH2, CTTN, FGFR1, HGF, 1.11E-02 BGLAP, CAMK2A, CDH1, CDH2, CTTN, FGF1, 5.28E-09 JUN, MET, RPS6KA1, RUNX2, FGF18, FGF6, FGFR1, FOS, HGF, JUN, MET, SPRY2 MMP9, NCAM1, PDK1, PDPK1, PLAU, PLAUR, RUNX2, SDC2, SHC1, SPRY2, SRC, STAT1, STAT5B Plasma membrane ESR1, GNG2, HBEGF, IGF1, 1.37E-02 ESR1, GNA15, HBEGF, IGF1, IGF1R, MAPK11, 2.43E-03 estrogen receptor MAPK11, MMP2, NOS3, PLCB1 MMP2, MMP9, NOS3, PLCB2, RHOA, SHC1, signaling SRC RXR and RAR NR1H3, NR4A1, PPARD, PPARG, 1.55E-02 ABCA1, NR1H3, NR1H4, RARA, RARB, RXRA, 1.83E-02 heterodimerization with TNF, VDR THRA, VDR other nuclear receptor Ephrin B reverse CXCR4, EPHB2, FGR, ITGA2B, 1.55E-02 CXCR4, EFNB2, FGR, FYN, ITGA2B, LYN, 6.23E-03 signaling PTPN13, YES1 SRC, TIAM1, YES1 HIV-1 Nef: Negative BIRC3, CD247, CYCS, MAP3K5, 1.59E-02 BID, BIRC3, CASP6, CASP7, FAS, MAP3K14, 2.84E-02 effector of Fas and TNF- TNF, TNFRSF1A, TRAF1 NFKB1, NFKBIA, TRAF1 alpha p75(NTR)-mediated APH1B, BCL2L11, BIRC3, CYCS, 1.64E-02 BEX1, BIRC2, BIRC3, CASP6, FURIN, MAG, 1.6E-03 signaling MMP7, MYD88, NGFRAP1, PRKCZ, MAGED1, MAGEH1, MYD88, NGFRAP1, OMG, RTN4R, SORT1, SQSTM1 PRKACB, RHOA, RHOB, RHOC, RIPK2, RTN4, RTN4R, SHC1 Stabilization and AQP3, CDH1, CYFIP2, EFNA1, 1.73E-02 ACTN1, AQP3, AQP5, CDH1, EFNA1, EGFR, 2.05E-10 expansion of the E- HGF, IGF1, MET, MLLT4 ENAH, EPHA2, HGF, IGF1, IGF1R, KIF3C, cadherin adherens KIFC3, LPP, MET, MLLT4, MYL2, MYO6, junction NCKAP1, PIP5K1C, PVRL2, RHOA, VASP, ZYX Supplemental Table II Cont’d Downstream signaling in CD247, EGR1, EOMES, GZMB, 1.78E-02 CD3D, CD8A, EGR1, FOS, IL2, IL2RA, IL2RG, 2.99E-02 naïve CD8+ T cells IFNAR2, IL2RA, JUN, STAT4, TNF, JUN, JUNB, PRKCA, PRKCE, PRKCQ, TNFRSF4, TRA@ TNFRSF18, TNFRSF4, TNFRSF9 Signaling events ARHGAP26, ASAP1, CCND1, 1.80E-02 ACTN1, ARHGAP26, ARHGEF11, ARHGEF7, 3.52E-03 mediated by focal ITGAV, ITGB5, JUN, KLF8, BMX, CCND1, ELMO1, FYN, GRB7, GRLF1, adhesion kinase PTPN21, RGNEF, YES1 ITGAV, ITGB5, JUN, KLF8, MMP14, RHOA, SH3GL1, SRC, YES1 IL23-mediated signaling CXCL1, IL18R1, IL1B, IL6, MPO, 2.05E-02 CXCL1, CXCL9, IL12B, IL18R1, IL18RAP, IL1B, 2.07E-06 events STAT4, TNF IL2, IL23R, IL6, JAK2, MPO, NFKB1, NFKBIA, SOCS3, STAT1, STAT5A, TYK2 IL4-mediated signaling CCL17, COL1A1, EGR2, FES, IL10, 2.32E-02 ALOX15, ARG1, BCL2L1, CCL17, CEBPB, 2.13E-06 events IL4, IRF4, MYB, PIGR, SOCS1 COL1A1, COL1A2, EGR2, IL10, IL13RA1, IL2RG, IL4, IL5, IRF4, JAK2, LTA, MYB, SHC1, SOCS1, SOCS3, STAT5A, STAT5B, STAT6, THY1 Regulation of RAC1 BCR, DOCK6, EPS8, KALRN, 2.58E-02 ARHGAP9, ARHGEF7, BCR, ELMO1, EPS8, 9.57E-05 activity PREX1, RASGRF1, TIAM2 PREX1, RACGAP1, RALBP1, RASGRF2, SPATA13, TIAM1, TIAM2, VAV1, VAV2, VAV3 Posttranslational CABLES1, CDH1, CDH2, DSP, JUP, 2.62E-02 ABL1, CABLES1, CDH1, CDH2, EGFR, FYN, 7.5E-03 regulation of adherens MET, MMP7, RIN2 GNA12, IGF1R, JUP, MET, PTPN1, SRC, TIAM1 junction stability and dissassembly ErbB receptor signaling AREG, EREG, HBEGF, NRG1 3.04E-02 AREG, AREGB, EGFR, ERBB2, ERBB3, 3.02E-03 network HBEGF, NRG1 Alpha-synuclein FGR, GRK5, MAOB, PLD1, UCHL1, 3.08E-02 FGR, FYN, GRK5, KLK6, LYN, MAOB, PARK2, 5.92E-04 signaling YES1 PLCB2, PRKCD, SLC6A3, SRC, YES1 Fc-epsilon receptor I CBLB, FCER1A, GAB2, JUN, LAT, 3.54E-02 DUSP1, FCER1A, FCGR2B, FOS, FYN, JUN, 2.0E-03 signaling in mast cells MS4A2, PPAP2A, PTPN13, S1PR1 LAT, LAT2, LYN, MS4A2, NFKB1, PLA2G4A, PPAP2A, S1PR1, SHC1, SPHK1, VAV1 Supplemental Table III: Top 50 human genes modulated by M-CSF co-addition with GM-CSF relative to MDM or GM-MDM.

Fold change Fold change M-GM-MDM vs M-GM-MDM vs Gene Symbol MDM Gene Symbol GM-MDM SERPINB2 -343.0 FAP -12.4 HBB 183.6 NEFL -10.1 DLL1 -132.0 LGI2 -7.4 SOBP 83.6 IBSP -7.4 IGF1 -79.0 SPARCL1 -7.4 HBG1 79.0 STEAP4 6.9 TMEM130 78.3 STEAP2 -6.3 CD2 72.9 MRO -5.7 KCNK17 65.5 CMYA1 5.3 CD1B 61.4 CXADR -5.2 INHBA 58.9 SPINK6 -5.1 CDH1 58.6 GFRA2 5.1 CTTNBP2 -58.0 SHC3 -5 FCGBP -54.8 PARVA -4.4 HBD 54.0 TAGLN3 4.3 CD163L1 -52.0 SGPP2 4.2 IGFBP2 49.9 EHD2 -4.1 FOLR2 -49.2 Gcom1 -4.1 TACSTD2 48.0 PDK4 -4 SYTL1 46.0 OSTbeta 4 CCL1 42.6 PPAPDC1A -3.9 MAOB 42.2 UNC13A 3.8 ARNT2 -41.1 MMP10 3.8 FA2H 40.4 TCN1 -3.7 SEPP1 -39.3 LRRC32 3.7 TSPAN2 35.7 ACCN2 -3.7 ECSM2 35.7 ABCB1 3.6 FAIM2 34.4 KCNG1 -3.6 TCL1A 33.7 TCTEX1D1 -3.5 CD28 -33.3 LYZL2 3.5 COL23A1 -32.5 GPR109B 3.5 GPRC5B -30.8 EBI3 3.5 CH25H 29.8 TMEM37 -3.5 IL22RA2 28.9 THBD -3.4 CCR6 28.2 PNPLA1 3.4 NEFL 28.0 THBS2 -3.4 C19orf59 26.0 STC2 -3.4 EDNRB -25.9 TMSB15B 3.4 CACNA2D3 -25.7 CD93 -3.3 RGNEF 25.7 EGR3 3.3 Supplemental Table III Cont’d ARL4C -25.0 CAV1 3.3 LTB 24.8 MYH11 3.3 IL3RA 24.4 C17orf72 -3.3 CYP27B1 24.4 MT1JP 3.2 SMPD3 24.3 CLDN1 3.2 TSKU 24.0 C9orf165 3.2 FBLN5 -23.9 CCL17 3.2 CYP3A7 23.6 PRTFDC1 -3.2 LGMN -23.6 GP1BA 3.2 RGMA -23.2 KRT19 -3.2 Supplemental Table IV: Top 50 Genes differentially expressed between BMM starved for 24hrs then treated for 16hr with M-CSF or GM-CSF or both.

Fold change Fold change Fold change M-CSF M-CSF + GM-CSF M-CSF + GM-CSF Gene Symbol vs GM-CSF Gene Symbol vs GM-CSF Gene Symbol vs M-CSF Tppp3 -77.8 Baiap2l1 81.1 Glod5 41.9 Saa3 -66.6 Ccl7 75.2 Myct1 34.6 Gprc5c -64.0 Saa3 -66.1 D030051J21Rik 28.4 Amica1 -54.8 Mmp10 60.0 Ear10 -26.8 Arg2 -45.9 Gprc5c -54.7 1700037N05Rik 22.0 Il1a -38.3 Cfb -47.1 Dnahc3 20.6 Il6 -37.8 Ffar2 -41.1 Cmah -20.0 Gbp4 -33.8 Emr4 -35.8 Adra2c -19.1 D230002A01Rik -32.6 Gbp8 -34.0 B930063P07Rik 17.3 Adamtsl4 -31.8 Ccl12 33.8 Gast 16.8 Gykl1 31.7 Spic -33.4 Olfr628 16.4 Il1b -30.2 Bmf -32.3 Slc34a3 16.2 Ffar2 -28.7 Sult1a1 -29.9 Car4 -15.5 Src -27.9 8030451A03Rik 29.5 Cd97 -14.9 Klk1b1 -26.4 Ch25h 29.4 Dct 14.2 Rasgrp1 -26.1 Tppp3 -27.9 Gpr128 13.5 Csf3 -23.2 Hs3st1 25.0 8030451A03Rik 13.1 Sectm1a -22.7 Gbp5 -25.0 Mmp12 12.8 Sncaip 22.7 Gbp4 -24.9 2210411G17Rik 12.4 2310014F07Rik -22.4 St3gal6 24.9 Krt6b 12.1 Olfr1454 -20.9 Gm711 -24.5 5730585A16Rik 11.7 Ppm1n -19.9 Arg2 -23.2 Lce1h 11.5 Car4 19.9 Src -21.6 Peg3 11.4 Supplemental Table IV Cont’d Rgs1 19.7 Zfp879 20.5 Cx3cr1 -11.4 Dnahc2 -19.4 Amica1 -20.3 Klhl3 -11.2 Cd300e 19.3 Zfp618 20.3 Mgll -11.1 Hmga2 19.3 Il1b -20.2 Kcnj12 10.8 Casp12 -19.2 Fosl1 20.2 Mbl1 10.6 Fcgrt -19.2 Fcgrt -20.0 Zscan4c -10.1 Pdgfc -18.6 Klk1b1 -19.6 Gal3st4 -10.0 Olfr259 -18.3 Aqp3 -18.9 S100a7a 9.9 Hepacam2 -18.1 2200002K05Rik 18.2 Gm5086 -9.8 A630072L19Rik -17.1 Tm4sf5 -17.6 Meox1 9.8 Zfp354b 17.0 Ambp 17.6 1700072E05Rik 9.8 Tcea3 -16.5 Csf3 -17.6 Mapk8ip2 9.7 Zfp618 16.3 Zmynd15 -17.5 Fam181b -9.6 Bok 15.8 Prss46 17.4 Vwa5b1 9.6 Defa-rs12 -15.5 Sectm1a -16.9 Vmn1r201 9.4 Itga8 15.4 Aqp8 15.9 Susd4 9.3 St3gal6 15.4 Cp -15.7 Olfr554 -9.3 Plau 15.4 Mmp14 -15.7 Scgb1c1 9.3 Serpinb6b 15.2 Ccnd1 15.5 Olfr444 9.2 Dcaf12l2 -15.0 Siglecg -15.1 Gsx1 9.2 Bdh2 14.8 Il1a -14.9 Pacrg -9.0 Cish -14.8 Adamtsl4 -14.7 Ccdc11 9.0 Irf4 -14.5 Ppm1n -14.4 2310057J16Rik -9.0 Acpp -14.4 Vmn1r76 14.4 Ear1 -8.8 Rab44 -14.4 Hepacam2 -13.9 Asb9 8.6 Moxd2 14.3 Ccl3 13.7 Slco2b1 -8.4 Baiap2l1 14.1 Tbx6 -13.5 Pcdhga1 -8.3