Supporting Table 1. Genes Differentially Expressed in HepaRG Cells by the Coculture Condition List of Up-Regulated Genes Gene symbol Description GB acc EntrezID p-value FDR HepaRG HepaRG/LX2 Fold-change CYP1A1 cytochrome P450, family 1, subfamily A, polypeptide 1 NM_000499 1543 0.0000021 0.00591 0.54 8.55 15.87 ENO2 enolase 2 NM_001975 2026 0.0003024 0.0243 0.049 0.32 6.67 C15orf48 chromosome 15 open reading frame 48 NM_032413 84419 0.0000131 0.00851 1.28 6.97 5.56 WISP2 WNT1 inducible signaling pathway protein 2 NM_003881 8839 0.0000395 0.0113 1.94 10.56 5.56 COL13A1 collagen, type XIII, alpha 1 NM_080801 1305 0.0000713 0.0135 0.58 2.55 4.35 C4orf47 chromosome 4 open reading frame 47 NM_001114357 441054 0.000041 0.0113 1.23 5.01 4.00 ZP1 zona pellucida glycoprotein 1 NM_207341 22917 0.0000433 0.0114 0.2 0.8 4.00 DENND2A DENN/MADD domain containing 2A NM_015689 27147 0.0000763 0.0138 0.19 0.73 3.85 SAA2 serum amyloid A2 NM_001127380 6289 0.0002017 0.0204 0.91 3.45 3.85 CP ceruloplasmin NM_000096 1356 0.0000028 0.00591 1.07 3.97 3.70 TXNIP thioredoxin interacting protein NM_006472 10628 0.0001031 0.0155 0.1 0.37 3.57 TEK TEK tyrosine kinase, endothelial NM_000459 7010 0.0000543 0.0119 0.14 0.48 3.45 C3P1 complement component 3 precursor pseudogene NR_027300 388503 0.0003026 0.0243 0.63 2.06 3.33 IL1RL1 interleukin 1 receptor-like 1 NM_016232 9173 0.0000345 0.0111 1.15 3.65 3.13 NDRG1 N-myc downstream regulated 1 NM_006096 10397 0.0001186 0.0164 1.3 4.07 3.13 IL6 interleukin 6 NM_000600 3569 0.0001052 0.0157 0.45 1.36 3.03 S100A8 S100 calcium binding protein A8 NM_002964 6279 0.0001176 0.0164 1.06 3.13 2.94 EREG epiregulin NM_001432 2069 0.0000076 0.00709 1.83 5.21 2.86 RASD1 RAS, dexamethasone-induced 1 NM_016084 51655 0.0000848 0.0142 0.97 2.74 2.86 CA12 carbonic anhydrase XII NM_001218 771 0.0000043 0.00591 2.48 6.81 2.78 SPAG4 sperm associated antigen 4 NM_003116 6676 0.0000186 0.00931 0.57 1.56 2.78 H19 H19, imprinted maternally expressed transcript NR_002196 283120 0.0001937 0.0203 3.02 8.24 2.70 HMHA1 histocompatibility (minor) HA-1 NM_012292 23526 0.0000535 0.0119 4.49 12.07 2.70 IER3 immediate early response 3 NM_003897 8870 0.0000035 0.00591 1.43 3.83 2.70 MT1X metallothionein 1X NM_005952 4501 0.0000062 0.0067 0.93 2.48 2.70 FAM27A family with sequence similarity 27, member A NR_024060 548321 0.0000112 0.00791 1.76 4.59 2.63 protein tyrosine phosphatase, receptor type, f PPFIA4 polypeptide, interacting protein, alpha 4 NM_015053 8497 0.000156 0.0186 0.19 0.5 2.63 solute carrier family 6 (neurotransmitter transporter, SLC6A8 creatine), member 8 NM_005629 6535 0.0003998 0.0279 1.25 3.29 2.63 ALDOC aldolase C, fructose-bisphosphate NM_005165 230 0.0000954 0.0151 0.7 1.78 2.56 SAM domain, SH3 domain and nuclear localization SAMSN1 signals 1 NM_022136 64092 0.0000001 0.00206 2.59 6.71 2.56 IGFBP3 insulin-like growth factor binding protein 3 NM_001013398 3486 0.0000161 0.00908 3.47 8.6 2.50 MUC1 mucin 1, cell surface associated NM_002456 4582 0.0000941 0.0151 0.37 0.91 2.50 TMEM45A transmembrane protein 45A NM_018004 55076 0.0000344 0.0111 0.53 1.3 2.44 BMPER BMP binding endothelial regulator NM_133468 168667 0.00018 0.0196 1.37 3.28 2.38 HULC highly up-regulated in liver cancer NR_004855 728655 0.000206 0.0205 0.92 2.17 2.38 solute carrier family 6 (neurotransmitter transporter, SLC6A10P creatine), member 10 NR_003083 386757 0.0001374 0.0174 1.78 4.22 2.38 BNIP3 BCL2/adenovirus E1B 19kDa interacting protein 3 NM_004052 664 0.0000372 0.0111 0.95 2.23 2.33 CA9 carbonic anhydrase IX NM_001216 768 0.0002515 0.022 2.98 6.89 2.33 CD3D CD3d molecule, delta (CD3-TCR complex) NM_000732 915 0.0000211 0.00932 1.94 4.51 2.33 IL1B interleukin 1, beta NM_000576 3553 0.000096 0.0151 0.16 0.38 2.33 PDK1 pyruvate dehydrogenase kinase, isozyme 1 NM_002610 5163 0.0000244 0.00932 0.74 1.72 2.33 THBS2 thrombospondin 2 NM_003247 7058 0.0000372 0.0111 0.037 0.085 2.33 CLEC3B C-type lectin domain family 3, member B NM_003278 7123 0.0002815 0.0235 1.49 3.41 2.27 CPNE5 copine V NM_020939 57699 0.0000065 0.0067 1.05 2.36 2.27 DNER delta/notch-like EGF repeat containing NM_139072 92737 0.0000115 0.00791 3.56 8.11 2.27 SYTL2 synaptotagmin-like 2 NM_206927 54843 0.0000296 0.0103 0.98 2.25 2.27 ADSSL1 adenylosuccinate synthase like 1 NM_199165 122622 0.0000035 0.00591 0.97 2.14 2.22 C1QTNF1 C1q and tumor necrosis factor related protein 1 NM_198594 114897 0.0001349 0.0174 1 2.21 2.22 IGFBP1 insulin-like growth factor binding protein 1 NM_000596 3484 0.0000374 0.0111 1.26 2.78 2.22 MT1E unknown mRNA AF495759 4493 0.0000233 0.00932 0.92 2.01 2.17 APCS amyloid P component, serum NM_001639 325 0.0000074 0.00709 0.98 2.11 2.13 C13orf33 chromosome 13 open reading frame 33 NM_032849 84935 0.0001804 0.0196 0.21 0.45 2.13 C16orf74 chromosome 16 open reading frame 74 NM_206967 404550 0.0000023 0.00591 1.44 3.05 2.13 CCL20 chemokine (C-C motif) ligand 20 NM_004591 6364 0.0000132 0.00851 1.08 2.28 2.13 MX2 myxovirus (influenza virus) resistance 2 NM_002463 4600 0.00005 0.0115 0.31 0.66 2.13 CYP1B1 cytochrome P450, family 1, subfamily B, polypeptide 1 NM_000104 1545 0.0000176 0.00908 1.48 3.09 2.08 GFPT2 glutamine-fructose-6-phosphate transaminase 2 NM_005110 9945 0.0004493 0.0299 0.15 0.32 2.08 C21orf90 chromosome 21 open reading frame 90 NR_026547 114043 0.0000095 0.00726 1.95 3.96 2.04 ITIH3 inter-alpha (globulin) inhibitor H3 NM_002217 3699 0.0003927 0.0277 0.82 1.67 2.04 PLOD2 procollagen-lysine, 2-oxoglutarate 5-dioxygenase 2 NM_182943 5352 0.0003379 0.0254 1.02 2.08 2.04 solute carrier family 7 (cationic amino acid transporter, SLC7A5 y+ system), member 5 NM_003486 8140 0.0000446 0.0114 0.45 0.91 2.04 WDR54 WD repeat domain 54 NM_032118 84058 0.0001595 0.0186 0.39 0.78 2.04 ADRBK2 adrenergic, beta, receptor kinase 2 NM_005160 157 0.0000401 0.0113 0.12 0.25 2.00 HOPX HOP homeobox NM_139211 84525 0.0000035 0.00591 1.57 3.16 2.00 LBP lipopolysaccharide binding protein NM_004139 3929 0.0000374 0.0111 1 1.99 2.00 SAA1 serum amyloid A1 NM_000331 6288 0.0000079 0.00709 0.96 1.91 2.00 SOCS1 suppressor of cytokine signaling 1 NM_003745 8651 0.0001437 0.0179 0.4 0.81 2.00 SOCS3 suppressor of cytokine signaling 3 NM_003955 9021 0.0000171 0.00908 1.28 2.58 2.00 ERO1L ERO1-like NM_014584 30001 0.000108 0.016 0.99 1.92 1.96 IL8 interleukin 8 NM_000584 3576 0.0000782 0.0138 1.15 2.24 1.96 KRT6A keratin 6A NM_005554 3853 0.0000083 0.00713 10.69 20.88 1.96 PCOLCE2 procollagen C-endopeptidase enhancer 2 NM_013363 26577 0.0001182 0.0164 1.72 3.37 1.96 BNIP3L BCL2/adenovirus E1B 19kDa interacting protein 3-like NM_004331 665 0.0000258 0.0095 0.42 0.81 1.92 C13orf15 chromosome 13 open reading frame 15 NM_014059 28984 0.000143 0.0179 1.96 3.77 1.92 MT1H metallothionein 1H NM_005951 4496 0.0001139 0.0164 0.54 1.02 1.92 PTGFR prostaglandin F receptor NM_000959 5737 0.0000138 0.00863 0.83 1.59 1.92 AREG amphiregulin NM_001657 374 0.0000866 0.0143 0.91 1.7 1.89 C3orf59 chromosome 3 open reading frame 59 NM_178496 151963 0.0000753 0.0137 0.44 0.83 1.89 MAP7D2 MAP7 domain containing 2 NM_152780 256714 0.000006 0.0067 5.58 10.55 1.89 MT1B metallothionein 1B NM_005947 4490 0.0000087 0.00718 0.54 1.02 1.89 PGK1 phosphoglycerate kinase 1 NM_000291 5230 0.0001202 0.0164 0.76 1.44 1.89 PTTG1IP pituitary tumor-transforming 1 interacting protein NM_004339 754 0.0000225 0.00932 1.03 1.96 1.89 ANGPTL4 angiopoietin-like 4 NM_139314 51129 0.0000172 0.00908 1.47 2.71 1.85 CHI3L1 chitinase 3-like 1 NM_001276 1116 0.0000352 0.0111 0.96 1.78 1.85 FGA fibrinogen alpha chain NM_000508 2243 0.0000743 0.0137 0.96 1.77 1.85 HS3ST3B1 heparan sulfate (glucosamine) 3-O-sulfotransferase 3B1 AK023723 9953 0.0000665 0.0131 1.33 2.45 1.85 LPCAT1 lysophosphatidylcholine acyltransferase 1 NM_024830 79888 0.0000146 0.00886 1 1.86 1.85 MUCL1 mucin-like 1 NM_058173 118430 0.0006771 0.0354 1.03 1.91 1.85 TLR2 toll-like receptor 2 NM_003264 7097 0.0000467 0.0115 1.12 2.08 1.85 ITGA5 integrin, alpha 5 NM_002205 3678 0.0000162 0.00908 0.67 1.22 1.82 NXPH4 neurexophilin 4 NM_007224 11247 0.0001534 0.0186 1.7 3.07 1.82 PTX3 pentraxin 3, long NM_002852 5806 0.0000449 0.0114 0.13 0.24 1.82 TGFBI transforming growth factor, beta-induced, 68kDa NM_000358 7045 0.0000312 0.0107 0.56 1.02 1.82 TMEM158 transmembrane protein 158 NM_015444 25907 0.0000243 0.00932 0.34 0.63 1.82 DNAH5 dynein, axonemal, heavy chain 5 NM_001369 1767 0.0001766 0.0194 1.06 1.9 1.79 F3 coagulation factor III NM_001993 2152 0.0000662 0.0131 0.37 0.67 1.79 G protein-coupled receptor, family C, group 5, member GPRC5A A NM_003979 9052 0.0001754 0.0194 0.85 1.52 1.79 HAPLN3 hyaluronan and proteoglycan link protein 3 NM_178232 145864 0.0002865 0.0235 0.52 0.93 1.79 LDHA lactate dehydrogenase A NM_005566 3939 0.0000549 0.0119 0.92 1.66 1.79 LRP1B low density lipoprotein receptor-related protein 1B NM_018557 53353 0.0001566 0.0186 1.07 1.92 1.79 solute carrier family 29 (nucleoside transporters), SLC29A4 member 4 NM_001040661 222962 0.0000321 0.0109 1.47 2.66 1.79 APOL1 apolipoprotein L, 1 NM_145343 8542 0.0001888 0.0202 1.16 2.02 1.75 CDCP1 CUB domain containing protein 1 NM_022842 64866 0.000021 0.00932 0.39 0.69 1.75 CXCL2 chemokine NM_002089 2920 0.000071 0.0135 1.02 1.8 1.75 DCN decorin NM_001920 1634 0.0000724 0.0135 0.35 0.61 1.75 MASP1 mannan-binding lectin serine peptidase 1 NM_001031849 5648 0.0002039 0.0204 1.53 2.68 1.75 P4HA1 prolyl 4-hydroxylase, alpha polypeptide I NM_001142595 5033 0.0001688 0.0191 0.41 0.71 1.75 AFAP1L1 actin filament associated protein 1-like 1 NM_152406 134265 0.0001709 0.0192 1.18 2.04 1.72 BIRC3 baculoviral IAP repeat-containing