Table 1 Biological networks and associated top functions generated from polysome-bound probe sets regulated upon HepaRG cell differentiation

Up-regulated

A

Cell cycle

ACTR2, C21ORF33, CAST, CCND3, CD86, CDC34, CKB, DACH1, EDA, FASTK, FKBP5, HDAC5, HSP90B1, MEF2C, MEF2D, NF-KBIA, PHB, PLCL1, PTMS, PTN, PTPN13, RAB5B, RAB5C, SF3B1, SF3B3, SMARCA2, SMARCB1, SMARCC2, TF, TMOD1, TSC22D3, UBE1

B

Cell death

ACO1, ACO2, ALB, ATRX, BCAP31, BRAF, CALR, CASP8, CFLAR, FCGRT, FOXA1, FTL, HLA-F, IFI16, IGFBP1, IHPK2, IL6R, KNG1, LRP1, MADD, MAP2K2, MDM2, NBN, NEK1, NOL3, PEBP1, RAD50, SIVA, THBS3, TSC2, TTR, ZNF350

C

Cell death

Innate immunity

BCL2, BCL2L11, BCLAF1, BNIP3L, BSG, CAPN1, CAPN7, CASP9, CCNG2, DUSP6, FOXO3A, FRAT2, HBP1, IRF3, IRF7, LBP, MAP2, MAPT, MOAP1, NDRG1, NOSIP, PDCD8, PPP2R4, PTBP1, RARRES3, RBM5, SATB1, TEGT, TNFRSF11B, TNFSF10, TNFSF13, WWOX

D

Innate immunity

BBS4, C3, C1RL, C1S, CDK5, CDK5RAP2, CFB, CFI, DCTN1, DDB2, DHX9, ECM1, ERBB3, HP, IL6ST, MCM4, MCM5, NR3C2, OAS1, PCM1, PIAS1, PIN1, PIP5K1C, PPP1R1A, PTPN6, RASSF4 (includes EG:83937), RNF41, RRAS, SAP18, SERPING1, SP100, STAT1, TLN1

E

Lipid metabolism

Drug metabolism

ADRA1A, AMPH, AP2A2, APBA3, APOA1, APOC3, BIN1, CEBPD, CPB2, DNM2, EFNA1, EHD1, EPPB9, FABP4, FGA, FGB, FGG, HELZ, HMGCS2, HSD17B4, IL13RA2, MECR, MLYCD, NCKIPSD, NR1H4, PLA2G2A, PLD1, PPARA, SMYD3, SORBS2, STAT3, SYT1, VAMP2, WASL

F

Lipid metabolism

Drug metabolism

ACOX1, ADH6, BRD8, CEBPA, CEP350, CHI3L1, CRADD, CYP3A4, CYP3A5, CYP3A7, FABP1, GADD45G, H1FX, HADHA, HADHB, HPR, MPG, NFIL3, NR1H2, PCBP2, PEX11A, PLOD2, PPARD, RXRA, S100A8, S100A9, SERPINB1, SLC10A1, SMPDL3A, SULT2A1, TANK, UBN1

G

Lipid metabolism

Drug metabolism

ACAA1, ACACB, ADH1A, ADH1B, ADH1C, ADM, AGT, AMACR, ATP1A1, CFH, DBP, DHCR7, EHHADH, FASN, FDPS, FXYD2, HLF, MEIS1, MLXIPL, MVD, MYH10, NSDHL, PEX5, PEX7, PPP1R12A, PURA, PYGL, RXRB, SREBF1, TCF8, TM7SF2, TXNIP, ZBTB16

H

Cell morphology

AIP, ANXA6, ARHGAP1, ARHGEF9, C13ORF24, CBLB, CD40, CDC42, COPA, COPB2, COPE, COPG, COPZ1, CUL5, DOCK9, DPP4, FYN, IQGAP1, JAK2, PDE4A, PIK3R1, PLCG1, PRMT5, PTPRA, SLIT2, SND1, SORBS1, STAT6, TCEB2, TIMP1, USP33

I

Cell environment

A2M, APOH, C5, C6, EGR1, ENPEP, F5, F10, FN1, IGFBP2, IL1R1, MAOB, MGP, MMP3, MTCP1, NAB2, NUP88, NUP214, NXF3, ORM1, SAPS2, SERPINA5, SERPINF2, SLC25A4, SOD2, SPARC, SPOCK3, ST6GAL1, TAOK2, TFPI, TFPI2, VPS45A, VTN

Down-regulated

J

Cell movement

ACACA, BMP2, CCL2, CSF1, DDX21, FHL2, HGF, HNRPL, IL8, IRAK1, ITGA6, ITGAM, LIF, NCF2, PDGFB, POSTN, SERPINE1, SLC12A6, SYK, TGFB2, THBS1, TLR3, TNC, TNFAIP3, TRAF1, VEGF