Table 3.
Differentially expressed proteins in CD44 variant 9 (CD44v9)+ and CD44v9− hepatocellular carcinomas, identified by liquid chromatography MS/MS
| Protein name | Symbol | GI number/Swiss‐Prot accession | Ratio | Location | Function(s) | |
|---|---|---|---|---|---|---|
| CD44v9 (−) | CD44v9 (+) | |||||
| NAD(P)H dehydrogenase, quinone 1 | NQO1 | 118 607 | – | 8.22 | C | XM, NO S |
| Superoxide dismutase 2, mitochondrial | SOD2 | 134 665 | – | 5.02 | C | RSR |
| Epoxide hydrolase 2, cytoplasmic | EPHX2 | 67 476 665 | – | 0.45 | C | XM, ROS M |
| Flavin containing monooxygenase 3 | FMO3 | 6 166 183 | 0.62 | 0.55 | C | XM |
| Flavin containing monooxygenase 5 | FMO5 | 1 346 021 | – | 0.70 | C | XM |
| Cytochrome P450, fam. 2, subfam. C, polypep. 8 | CYP2C8 | 117 225 | – | 0.28 | C | XM, AAM, ORP |
| Cytochrome P450, fam. 2, subfam. C, polypep. 9 | CYP2C9 | 6 686 268 | 0.60 | 0.27 | C | XM, AAM, ORP |
| Cytochrome P450, fam. 2, subfam. D, polypep. 6 | CYP2D6 | 84 028 191 | – | 0.50 | C | XM, ORP |
| Cytochrome P450, fam. 2, subfam. E, polypep. 1 | CYP2E1 | 117 250 | – | 0.66 | C | XM, EM, ORP |
| Cytochrome P450, fam. 3, subfam. A, polypep. 4 | CYP3A4 | 116 241 312 | 0.41 | 0.32 | C | XM, ORP |
| Cytochrome P450, fam. 3, subfam. A, polypep. 5 | CYP3A5 | 117 157 | – | 0.57 | C | XM, ORP |
| Cytochrome P450, fam. 4, subfam. A, polypep. 11 | CYP4A11 | 2 493 371 | – | 0.21 | C | XM, AAM, ORP |
| Cytochrome P450, fam. 4, subfam. F, polypep. 3 | CYP4F3 | 56 757 430 | – | 0.67 | C | XM, AAM, ORP |
| Cytochrome P450, fam. 8, subfam. B, polypep. 1 | CYP8B1 | G3V8J2 | – | 0.57 | C | XM, BAM, ORP |
| Carboxylesterase 1 | CES1 | 119 576 | – | 0.45 | C | XM |
| Catechol‐O‐methyltransferase | COMT | 116 907 | – | 0.56 | C | MET, XM, ESM |
| Glutathione S‐transferase alpha 1 | GSTA1 | 121 730 | 0.58 | 0.43 | C | XM, GM |
| Thioredoxin | TXN | 135 773 | 1.63 | 1.97 | C | ORP, NO R |
| Catenin (cadherin‐ass. protein), beta 1, 88 kDa | CTNNB1 | 461 854 | – | 1.65 | N | TRA |
| Prothymosin, alpha | PTMA | 135 834 | – | 1.70 | N | TRA |
| Tyrosine 3‐monooxygenase/tryptophan 5‐monooxygenase activation protein, eta | YWHAH | 1 345 593 | 1.32 | 1.68 | C | TRA, ST |
| Heat shock 70‐kDa protein 5 (glucose‐reg.prot.,78 kDa) | HSPA5 | 14 916 999 | 1.31 | 1.69 | C | PF, A(−) |
| Heat shock 70‐kDa protein 9 (mortalin) | HSPA9 | 21 264 428 | 1.29 | 2.27 | C | PF, A(−) |
| Calnexin | CANX | 543 920 | 1.88 | 1.68 | C | PF |
| Transketolase | TKT | 1 729 976 | – | 3.60 | C | CM |
| Glucose‐6‐phosphate dehydrogenase | G6PD | 116 242 483 | – | 3.23 | C | CM, GLM, LM |
| Hexokinase domain containing 1 | HKDC1 | Q2 TB90 | – | 1.85 | C | CM, GLM |
| Enolase 1, (alpha) | ENO1 | 119 339 | – | 1.64 | C | CM, GLM, TRA |
| Carnitine O‐acetyltransferase | CRAT | 215 274 265 | – | 2.03 | C | LM, CAM, T |
| UDP‐glucose pyrophosphorylase 2 | UGP2 | 59 803 098 | 0.52 | 0.43 | C | CM, GLM, XM |
| Arginase 1 | ARG1 | 12 230 985 | 0.51 | 0.38 | C | RD, UC |
| Argininosuccinate synthase 1 | ASS1 | 20 141 195 | 0.32 | 0.36 | C | RD, UC |
| Carbamoyl‐phosphate synthase 1, mitochondrial | CPS1 | 4033 707 | 0.29 | 0.33 | C | RD, UC |
| Ornithine carbamoyltransferase | OTC | 84 028 235 | 0.70 | 0.60 | C | RD, UC |
| Vimentin | VIM | 55 977 767 | – | 1.61 | C | CO |
| Keratin 18 | KRT18 | 125 083 | – | 0.62 | C | CO |
| Keratin 8 | KRT8 | 90 110 027 | – | 0.58 | C | CO |
| Cofilin 1 (non‐muscle) | CFL1 | 116 848 | – | 1.65 | N | ACO |
| Solute carrier fam. 9, subfam. A, mem. 3 reg. 1 | SLC9A3R1 | 41 688 557 | – | 1.62 | PM | ACO, CP(−) |
| Transgelin 2 | TAGLN2 | 586 000 | 1.25 | 2.18 | C | ACO |
| Periostin, osteoblast specific factor | POSTN | 93 138 709 | – | 3.52 | ES | CA |
| Fibronectin 1 | FN1 | P04937 | 2.60 | 2.04 | ES | CA, EMO |
| APEX nuclease (multifunct. DNA repair enzyme) 1 | APEX1 | 113 984 | – | 1.67 | N | DNAR, ReOS |
| Poly (ADP‐ribose) polymerase 1 | PARP1 | 130 781 | – | 1.60 | N | DNAR, BER |
| Synaptophysin‐like 1 | SYPL1 | 48 474 786 | – | 2.90 | PM | T |
| GTPase activating protein binding protein 1 | G3BP1 | 14 916 572 | – | 3.14 | N | T, ST |
| RAB35, member RAS oncogene family | RAB35 | Q15286 | – | 1.71 | C | T, ST |
| Apolipoprotein E | APOE | 114 039 | 6.36 | 1.54 | ES | T, ST |
| Fatty acid binding protein 1, liver | FABP1 | 119 808 | 0.66 | 0.23 | C | T ReOS |
| DEAD (Asp‐Glu‐Ala‐Asp) box polypeptide 39A | DDX39A | 61 212 932 | 1.83 | 1.76 | N | mRNA SPT |
A(−), negative regulation of apoptosis; AAM, arachidonic acid metabolism; ACO, actin cytoskeleton organization; BAM, bile acid metabolism; BER, base excision repair; C, cytoplasm; CA, cell adhesion; CAM, carnitine metabolism; CM, carbohydrate metabolism; CO, cytoskeleton organization; CP(−), negative regulation of cell proliferation; DNAR, DNA repair; E, enzyme; EM, ethanol metabolism; EMO, ECM organization; ES, extracellular space; ESM, estrogen metabolism; GM, glutathione metabolism; GLM, glucose metabolism; MET, methylation; mRNA SPT, mRNA splicing, processing, and transport; N, nucleus; NO R, response to nitric oxide; NO S, nitric oxide synthesis; ORP, oxidation‐reduction process; PF, protein folding; PM, plasma membrane; RD, response to drug; ReOS, response to oxidative stress; ROS M, reactive oxygen species metabolism; RSR, removal of superoxide radicals; ST, signal transduction; T, transport; TRA, transcription; UC, urea cycle.