Table 2

Differentially expressed genes based on major molecular and cellular functions.

No.

Molecular functions

No. of molecules

P value


1

Cellular movement

138

1.27E-24 -1.02E-03

Gene symbol: NPM1,FURIN,ZC3H12A,TGFBR1,GAS6,TGFBR3,CCL20,IL6,CCND1,ODC1,VEGFA,CHST2,

CTSS,RARA,LUM,FIGF,SERPINE1,GNG12,FGR,TP53,TP53INP1,LCP1,SLC2A1,ERAP1,ITGA5,MMP2,NFKB2,

MET,CSF2RB,MIB1,CTSB,ITGA1,CYR61,HMGB2,FLNB,FYN,ADAM17,ICAM1,BMPR2,JAK2,Lyz1/Lyz2,PTPN12,

GADD45A,PTPRJ,IGF1,ZFAND5,FABP4,TNFRSF1B,FGF7,GJB2,PLAT,TNFSF11,RHOC,TYROBP,Cd24a,VDAC3,

EFNA1,PTGES,GPI,HP,NFIA,ZEB2,CD44,FCER1G,RASGRF1,APBB2,MYH9,MAP3K8,NEDD9,LGALS3,RARRES2,

FGL2,S100A4,SDC4,CXCL3,STMN1,CYBB,NOD1,S100A10,GJA1,C3,LCN2,CD93,AQP1,LMNA,PDE4B,GSN,

Abcb1b,PPIC,TLR2,CBL,IL1RN,ACTN4,JAG1,MAP2,TMEM176B,SIRPA,IL6ST,RELA,NFIX,MMP14,DDX3X,

HIF1A,NFKB1,FAS,PTPRF,ANGPTL4,NFKBIA,GLI3,DDR2,TIMP1,PTPN1,EGLN3,ENPP2,CCRL1,ERRFI1,CHUK,

NOS2,ARID5B,CALR,TIMP3,SLC9A3R1,EDNRB,ASAP1,BGN,MAP3K1,BAX,NFKBIZ,FGF1,COL1A1,CXCL16,

EBF1,LPAR1,NT5E,CXCL12,CDKN1B,CXCL2,LGALS1

2

Cellular growth and proliferation

180

1.05E-17 - 5.73E-04

Gene symbol: ST6GAL1,NPM1,FURIN,CRYAB,CTCF,TGFBR1,TCN2,CEP120,GAS6,TGFBR3,MKI67,IL6,

CCND1,ODC1,VEGFA,LIFR,SOD2,MT2A,CTSS,RARA,FIGF,OSMR,SERPINE1,HIPK2,TP53,CYP7B1,TP53INP1,

NDRG1,ERAP1,MMP2,IER3,NFKB2,MET,CSF2RB,Krt19,ITGA1,CFLAR,MT1E,ADM,FYN,ICAM1,GRB14,DDIT3,

GPX1,BMPR2,PSEN2,JAK2,Gp49a/Lilrb4,ID1,ARRDC3,GADD45A,IGF1,PTPRJ,PRRX1,MXD1,CREB1,ASPH,

TNFRSF1B,FGF7,IRF2,PPP3CA,PLAT,SERTAD2,TNFSF11,ANGPT1,TYROBP,EGR1,Cd24a,SERPINF1,SMYD2,

PTGES,GPI,NOV,KRT8,SRGN,TF,NFIA,SPRY2,PELI1,PTH1R,ZEB2,CD44,FCER1G,RASGRF1,APBB2,MAFB,

TCF7L2,LGALS3,RARRES2,MMP3,NDRG2,FGL2,ZFP36L1,MEIS1,GIP,BCL6,CXCL3,TOP1,STMN1,IMPDH2,

ITGA11,NUPR1,CYBB,STK17B,TNFRSF11B,SOX4,GJA1,H19,C3,ATF3,LCN2,Abcb1b,MYOF,INHBA,ELF1,TLR2,

CBL,IL23R,CXCR7,IL1RN,LIMA1,TGFB3,JAG1,EREG,SIRPA,RBP4,IL6ST,TPM1 (includes EG:22003),ENPEP,

RELA,ADAMTS7,ID2,S100A6,MMP14,CLU,SAT1,RPS6KA3,DDX3X,PLA2G2A,HIF1A,NFKB1,TGIF1,FAS,

PTPRF,Igh2,HMOX1,AEBP1,SOX9,NFKBIA,ANGPTL4,GLI3,DDR2,PTPN1,TGFB2,ERRFI1,CHUK,NOS2,TERF1,

PTGER4,CALR,ARID5B,IL13RA1,MAP3K1,ERO1L,BAX,GRB10,CADM1,FGF1,CTF1,COL1A1,CXCL16,LPAR1,

NT5E,CXCL12,SPARC,TSC22D1,SKIL,CDKN1B,CXCL2,LGALS1

3

Cell death

139

1.09E-12 - 9.48E-04

Gene symbol: NPM1,ST6GAL1,CRYAB,TGFBR1,CTCF,GAS6,SGK1,XDH,SERPINA3,IL6,CCND1,ODC1,VEGFA,BNIP3,

SOD2,CTSS,MT2A,DLG4,SERPINE1,HIPK2,FGR,TP53,TP53INP1,SLC2A1,ITGA5,MMP2,NFKB2,IER3,MET,

CSF2RB,MIB1,ST3GAL1,CTSB,ITGA1,CFLAR,MT1E,FYN,DDIT3,GPX1,PSEN2,CASP4,JAK2,TANK,ID1,IGF1,

GADD45A,CREB1,MXD1,TOP2A,TNFRSF1B,PPP3CA,IRF2,GJB2,PLAT,TNFSF11,RHOC,TYROBP,EGR1,Cd24a,

VIM,PLK1,IRAK3,PTGES,GPI,KRT8,SRGN,ENO1,PTH1R,CD44,FCER1G,MAFB,BIRC2,LGALS3,FGL2,GIP,

MEIS1,SH3GL2,BCL6,HSPA5,CXCL3,TOP1,STMN1,TNIP1,CYBB,NUPR1,DAG1,NSMAF,BIRC3,STK17B,

TNFRSF11B,GJA1,ATF3,LCN2,LMNA,SLC1A1,GSN,INHBA,TLR2,CBL,IL1RN,ZNF274,TGFB3,FBN1,VDAC1,

SIRPA,IL6ST,SCD,RELA,ID2,MMP14,CLU,DDX3X,HIF1A,NFKB1,FAS,HMOX1,TGFB1I1,SOX9,NFKBIA,FXN,

PTPN1,TGFB2,CHUK,NOS2,PTGER4,TIMP3,BGN,MAP3K1,BAX,CADM1,CTF1,LPAR1,CXCL12,SPARC,

RPS6KA5,SKIL,CDKN1B,LGALS1,CASP8AP2

4

Cellular development

156

6.5E-10 - 9.63E-04

Gene symbol: NPM1,CTCF,TGFBR1,TCN2,RDH10,GAS6,XDH,IL6,CCND1,ODC1,VEGFA,LIFR,SOD2,EIF4G2,

RARA,EZR,ZHX2,SERPINE1,PRG4 (includes EG:10216),TP53,NAB1,ERAP1,CREBBP,THY1,ITGA5,IER3,NFKB2,

MET,CSF2RB,BSG,MIB1,CTSB,ITGA1,CYR61,HMGB2,ADM,FLNB,FYN,ADAM17,ICAM1,DDIT3,GPX1,BMPR2,

PSEN2,JAK2,ID1,IGF1,EFNA5,MXD1,CREB1,SLC11A2,FABP4,HEXB,TNFRSF1B,FGF7,IRF2,TNFSF11,ANGPT1,

TYROBP,EGR1,Cd24a,VIM,IRAK3,EFNA1,NOV,KRT8,SERPINH1,SPRY2,PTH1R,CD44,FCER1G,MYH9,MAFB,

TCF7L2,MYO1E,RARRES2,LGALS3,MMP3,S100A4,MAP4K4,MEIS1,BCL6,RBP1,BIN1,AGTPBP1,TOP1,ULK2,

TNFRSF11B,IGFBP6,GJA1,ATF3,C3,OSTM1,LCN2,LMNA,MYOF,GSN,INHBA,CREB3L2,TLR2,BHLHE41,CBL,

IL1RN,TGFB3,JAG1,SIRPA,IL6ST,TPM1 (includes EG:22003),SCD,RELA,ADAMTS7,ID2,RND1,MMP14,DDX3X,

EXT1,HIF1A,NFKB1,TGIF1,FAS,HMOX1,TGFB1I1,SOX9,NLK,NFKBIA,ANGPTL4,GLI3,TIMP1,TGFB2,ASPN,

EGLN3,ERRFI1,CHUK,NOS2,LONP1,PTGER4,CALR,ARID5B,EPAS1,EDNRB,Acan,ERO1L,BAX,FGF1,CADM1,

CTF1,COL1A1,HOPX,EBF1,CXCL12,SPARC,SKIL,COL11A1,CDKN1B,CXCL2,LGALS1

No.

Molecular functions

No. of molecules

P value

5

Cell Cycle

73

9.3E-10 - 8.75E-04

Gene symbol: NPM1,CRYAB,TGFBR1,CEP120,GAS6,MEIS1,MKI67,IL6,BCL6,TUBB,CCND1,FBXO4,SOD2,

RARA,FIGF,HIPK2,TP53,SETD8,TP53INP1,ATF3,LMNA,INHBA,MET,CCNG2,ZNF274,SIK1,EREG,ADM,RELA,

FYN,ID2,TIFA,PKD2 (includes EG:18764),RBBP8,RPS6KA3,DDX3X,HIF1A,JAK2,NFKB1,TGIF1,ID1,SOX9,

NFKBIA,IGF1,GADD45A,TIMP1,FSHR,MXD1,TOP2A,E2F5,ERRFI1,TNFRSF1B,NOS2,FGF7,PPP3CA,CALR,

TNFSF11,DBI,TYROBP,EGR1,PRC1,PLK1,BAX,GRB10,FGF1,GPI,CXCL12,APBB2,SPARC,MAP3K8,SKIL,

CDKN1B,SMARCAD1


Markova et al. Arthritis Research & Therapy 2013 15:R121   doi:10.1186/ar4301

Open Data