Table IV.
Dysregulated pathways identified by DAVID functional pathway analysis based on the abnormal gene.
| Pathway entry | Pathway names | Counts | Genes |
|---|---|---|---|
| 00010 | Glycolysis/gluconeogenesis | 22 | PGK1, PKLR, PCK2, ALDH2, PKLR, DLAT, ADH5, ADH5P4, LOC652797, PKM2, G6PC, ALDH7A1, HK1, FBP1, PFKP, ADH1C, ADH1B, ADH1A, ALDH7A1, PDHA1, ALDOC, ADH1C, ADH1B, ADH1A, ENO2, PGK1, PGAM2, DLD, HK2P1, HK2, PDHB, ALDH9A1, TPI1, TPI1P1 |
| 00020 | Citrate cycle (TCA cycle) | 14 | FH, MDH1, PCK2, ACO2, OGDH, PDHA1, DLAT, IDH2, LOC100130320, SDHD, SDHB, DLD, SUCLG1, PDHB, IDH1 |
| 00062 | Fatty acid elongation in mitochondria | 5 | ECHS1, HADHB, ACAA2, LOC648603, PPT1, PPT2 |
| 00071 | Fatty acid metabolism | 17 | ACAT1, GCDH, ACSL1, CPT1A, EHHADH, ALDH2, ALDH7A1, ADH1C, ADH1B, ADH1A, ECHS1, ADH1C, ADH1B, ADH1A, HADHB, ACAA2, LOC648603, ADH5, ADH5P4, ACADM, ACSL3, ACADSB, ALDH9A1, ALDH7A1, ACSL6 |
| 00260 | Glycine, serine and threonine metabolism | 15 | SDS, AMT, SHMT2, GLDC, AGXT, PHGDH, CTH, SRR, MAOA, BHMT, AGXT, GATM, DAO, GCAT, DLD, GCAT, SARDH |
| 00280 | Valine, leucine and isoleucine degradation | 25 | MUT, ACAT1, HMGCS2, EHHADH, ALDH2, MCCC2, MCCC1, ECHS1, HMGCL, HADHB, ACAA2, LOC648603, PCCA, ACADSB, ALDH7A1, AUH, ABAT, ALDH7A1, ABAT, HSD17B10, BCKDHB, OXCT1, AOX1, ALDH6A1, BCAT1, ACADM, DLD, ALDH9A1 |
| 00330 | Arginine and proline metabolism | 18 | P4HA2, ARG2, GLS, ALDH4A1, CKMT2, ALDH2, ALDH7A1, MAOA, GOT2, NOS1, SRM, OAT, CKB, GATM, DAO, ACY1, ALDH9A1, GOT1, ALDH7A1 |
| 00380 | Tryptophan metabolism | 14 | CAT, ACAT1, DDC, GCDH, EHHADH, OGDH, WARS, LDH2, ALDH7A1, MAOA, ECHS1, IDO1, AOX1, ALDH9A1, ALDH7A1 |
| 00410 | β-alanine metabolism | 9 | ECHS1, ABAT, GAD1, ACADM, EHHADH, ALDH2, ABAT, ALDH7A1, ALDH9A1, SRM, ALDH7A1 |
| 00620 | Pyruvate metabolism | 17 | ACACB, PKLR, ACACB, ACACA, MDH1, PCK2, ACAT1, ACACB, ME2, ALDH2, ALDH7A1, ME1, PDHA1, PKLR, DLAT, ME2, DLD, ME3, LOC652797, PKM2, PDHB, ALDH9A1, ALDH7A1 |
| 00640 | Propanoate metabolism | 15 | ACACB, ACACB, ACACA, ACAT1, ACACB, MUT, EHHADH, ALDH2, ABAT, ALDH7A1, ECHS1, ABAT, ALDH6A1, PCCA, ACADM, SUCLG1, ACSS3, ALDH9A1, ALDH7A1 |
| 00650 | Butanoate metabolism | 17 | GAD1, ACAT1, HMGCS2, EHHADH, L2HGDH, ALDH2, ABAT, ALDH7A1, PDHA1, ACSM3, ECHS1, ABAT, ACSM2A, HMGCL, OXCT1, ALDH5A1, PDHB, ALDH9A1, ALDH7A1 |
| 00670 | One carbon pool by folate | 9 | MTHFD2, MTHFS, MTHFR, AMT, SHMT2, TYMS, GART, ALDH1L1, ALDH1L1, MTHFD1 |
| 00680 | Methane metabolism | 4 | CAT, MTHFR, SHMT2, ADH5, ADH5P4 |
| 00910 | Nitrogen metabolism | 9 | CA6, AMT, GLS, CA2, CA4, CTH, CA12, CA9, CA8 |
| 03030 | DNA replication | 17 | POLD2, RFC2, PRIM1, PCNA, POLE2, POLA1, RFC4, MCM5, RFC5, RPA2, RPA1, RNASEH2A, MCM3, RPA4, MCM6, RNASEH2B, LIG1 |
| 03320 | PPAR signaling pathway | 22 | NR1H3, PCK2, FABP7, HMGCS2, PDPK1, ADIPOQ, ACSL1, ACOX2, CPT1A, EHHADH, GK3P, GK, ME1, PPARA, OLR1, FABP2, SLC27A2, ACADM, FABP3, FABP6, AQP7, ACSL3, ACSL6 |
| 03420 | Nucleotide excision repair | 16 | POLD2, RFC2, RBX1, PCNA, POLE2, RFC4, RFC5, RPA2, ERCC1, RPA1, ERCC5, ERCC3, RPA4, DDB2, XPC, LIG1 |
| 03430 | Mismatch repair | 11 | RFC5, POLD2, RPA2, RFC2, RPA1, PCNA, MSH6, RPA4, MSH2, RFC4, LIG1 |
| 04012 | ErbB signaling pathway | 26 | ERBB4, CRKL, MAPK10, HRAS, CAMK2B, PLCG2, MTOR, PIK3CG, CAMK2G, AREGB, AREG, MAPK1, RPS6KB1, PRKCA, EIF4EBP1, CAMK2A, MAPK9, NCK2, TGFA, PIK3R5, PIK3CD, PRKCA, PAK2, PAK6, PAK4, CDKN1B, EGF, CBLB, ERBB4, PRKCA, CAMK2G, PRKCA |
| 04110 | Cell cycle | 36 | STAG1, TP53, CCNB2, LOC651610, ATM, RBL1, CDC14B, PCNA, RB1, YWHAH, TTK, CCNE2, CDC7, MAD1L1, BUB1B, MCM5, CCNA2, CDKN2C, CDK2, CDC27, ANAPC1, LOC100133982, LOC100133898, CCNA2, ORC5L, CDK1, CDC27, CDKN2A, RBX1, CCND3, CHEK1, BUB1, CDC14B, CDKN1B, GADD45A, CDKN1C, CDKN2A, CND1, TGFB2, TGFB1, MCM3, SMAD4, STAG1, MCM6 |
| 04210 | Apoptosis | 25 | LOC651610, ATM, TP53, FADD, ENDOG, TRADD, EXOG, PIK3CG, PRKACG, PRKAR2A, CAPN2, CHP2, PRKAR2B, AIFM1, IRAK4, CSF2RB, RIPK1, PIK3R5, PIK3CD, DFFA, CYCS, TNFRSF10B, MYD88, CASP3, BIRC2, BID |
| 04514 | Cell adhesion molecules (CAMs) | 39 | CD4, CD40, MPZL1, CDH2, CD40, CD8A, HLA-F, HLA-DRA, CD86, HLA-DPA1, SIGLEC1, ITGA4, CDH15, CLDN10, PTPRC, CADM1, NFASC, SELPLG, CD2, SDC4, CDH4, SDC3, CDH5, HLA-E, CLDN16, PTPRM, CLDN14, OCLN, LOC647859, PECAM1, PVRL1, PECAM1, HLA-DPA1, CLDN6, LOC284620, NFASC, HLA-DOA, ITGA4, SELL, HLA-DMB, CLDN15, NLGN1, CD40, ICAM3, L1CAM, CLDN8, CDH3 |
| 04530 | Tight junction | 36 | MYH8, PRKCH, PRKCZ, HRAS, TJP3, EPB41L1, GNAI3, LLGL1, MLLT4, LOC730031, MYH10, MPDZ, MYL10, TJP1, MPP5, PRKCA, TJP2, CLDN10, PARD6A, INADL, GNAI1, MAGI1, CNKSR3, RRAS, SPTAN1, MYH8, EPB41L1, ACTN1, PRKCA, EXOC3, HCLS1, CLDN16, MAGI2, CLDN14, OCLN, LOC647859, MYH14, MYH10, PRKCQ, CLDN6, LOC284620, PRKCA, CLDN15, TJP3, PRKCE, MYH14, CLDN8, PRKCA, MAGI1, CNKSR3 |
| 04610 | Complement and coagulation cascades | 20 | VWF, C1QB, C7, C2, C5, F12, BDKRB2, KNG1, CR1, PROC, KLKB1, SERPINA5, C3AR1, PLG, CFB, CFH, MASP2, KNG1, LOC653879, LOC100133511, C3, C1QA, C5AR1 |
| 04620 | Toll-like receptor signaling pathway | 28 | CXCL11, CD40, TLR8, FADD, TLR2, MAPK10, IRF3, CCL5, TBK1, CD40, TLR3, PIK3CG, CD86, CXCL10, MAPK1, TLR7, IRAK4, MAPK9, RIPK1, PIK3R5, CXCL9, PIK3CD, CD14, CCL5, CCL4, LY96, MYD88, TLR1, CD40, MAPK14, TICAM1 |
| 04910 | Insulin signaling pathway | 42 | PKLR, ACACA, ACACB, CRKL, PCK2, MAPK10, ACACB, PRKCZ, IRS1, CALM3, CALM2, CALM1, HRAS, PRKAB1, PPP1R3C, CALM3, CALM2, CALM1, MTOR, PRKACG, PIK3CG, PKLR, PRKAR2A, RHOQP2, RHOQ, MAPK1, INS-IGF2, INS, IGF2, RPS6KB1, PRKAR2B, EIF4EBP1, PRKAA2, MAPK9, SLC2A4, G6PC, HK1, PIK3R5, ACACB, FBP1, PIK3CD, PDPK1, PYGL, GYS2, PTPN1, CBLB, PPP1CC, SREBF1, PPARGC1A, SOCS2, HK2P1, HK2, PHKA2, PPP1R3D |
| 04920 | Adipocytokine signaling pathway | 23 | NFKBIE, ACACB, MAPK10, ACACB, PCK2, ADIPOQ, IRS1, ACSL1, PRKAB1, NPY, TRADD, PPARA, MTOR, PRKAA2, MAPK9, SLC2A4, G6PC, ACACB, SLC2A1, CPT1A, PRKCQ, TNFRSF1B, PPARGC1A, ACSL3, ACSL6 |
| 04930 | Type II diabetes mellitus | 18 | PIK3R5, HK1, PKLR, PIK3CD, MAPK10, PRKCZ, ADIPOQ, IRS1, PIK3CG, MTOR, PKLR, INS-IGF2, INS, IGF2, MAPK1, SOCS2, HK2P1, HK2, LOC652797, PKM2, MAPK9, SLC2A4, PRKCE |
| 04960 | Aldosterone-regulated sodium reabsorption | 16 | PIK3R5, PIK3CD, SCNN1B, PRKCA, PDPK1, IRS1, KCNJ1, PIK3CG, NR3C2, ATP1B3, NEDD4L, INS-IGF2, INS, IGF2, MAPK1, PRKCA, PRKCA, ATP1B2, HSD11B2, SCNN1A, PRKCA |
| 05110 | Vibrio cholerae infection | 17 | ATP6V1E1, PRKCA, GNAS, ATP6V1B1, GNAS, ATP6V1G2, ATP6V0A4, PLCG2, PRKACG, KDELR3, ATP6V1A, ATP6V0C, TJP1, SEC61G, PRKCA, TJP2, CFTR, PRKCA, ATP6V1D, PDIA4, PRKCA |
| 05214 | Glioma | 20 | TP53, HRAS, CALM3, CALM2, CALM1, CAMK2B, RB1, PLCG2, CALM3, CALM2, CALM1, PIK3CG, MTOR, PDGFRA, CAMK2G, IGF1R, MAPK1, PRKCA, CAMK2A, TGFA, PIK3R5, PIK3CD, CDKN2A, PRKCA, EGF, CDKN2A, CCND1, PRKCA, CAMK2G, PRKCA |
Counts: Number of the abnormal genes included in related pathway. Genes: Office name of the abnormal genes, some genes have several names and all of these were listed. PPAR, peroxisome proliferator-activated receptor.