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. Author manuscript; available in PMC: 2015 Jan 1.
Published in final edited form as: Exp Cell Res. 2013 Jul 27;320(1):10.1016/j.yexcr.2013.07.019. doi: 10.1016/j.yexcr.2013.07.019

Table 1.

List of the identified proteins. Fold change and p value reported in italics are given as a supplemental comparison when proteins were quantified but not found differentially expressed according to our selection criteria.

Expression in MDA-GFP cells compared to MDA cells Protein name Gene symbol Uniprot acc. no. E.C. number Fold change
2-DE iTRAQ Label-free
↓ Cofilin-1 CFL1 P23528 −2.01 (spot 1) −1.18 (0.27)
↓ Ubiquitin carboxyl-terminal hydrolase 14 USP14 P54578 3.4.19.12 −2.09 (spot 2)
↓ Protein disulfide-isomerase P4HB P07237 5.3.4.1 −2.09 (spot 2) 1.28 (0.031)
↓ Phosphoglycerate mutase 1 PGAM1 P18669 3.3.3.13, 5.4.2.1, 5.4.2.4 −2.05 (spot 3)
↓ Proteasome subunit alpha type-6 PSMA6 P60900 3.4.25.1 −1.78 (spot 4)
↓ Elongation factor 1-delta EEF1D P29692 −1.54 (spot 5)
↓ Nucleophosmin NPM1 P06748 −1.53 (spot 6) −1.43 (0.059) −2.45 (0.101)
Conflicting data Hepatoma-derived growth factor HDGF P51858 −1.53 (spot 6) 1.28
↓ V-type proton ATPase subunit d 1 ATP6V0D1 P61421 −1.53 (spot 6) −1.53
↓ Ribosome biogenesis protein WDR12 WDR12 Q9GZL7 −1.63 (spot 7)
↓ 26S protease regulatory subunit 8 PSMC5 P62195 −1.25
↓ 40S ribosomal protein S19 RSP19 P39019 −1.20
↓ 40S ribosomal protein S2 RSP2 P15880 −1.29 −1.26 (0.043)
↓ 40S ribosomal protein S20 isoform 2 RSP20 P60866 −1.23
↓ 40S ribosomal protein S23 RSP23 P62266 −1.59
↓ 40S ribosomal protein S3 isoform 2 RSP3 P23396 −1.23
↓ 40S ribosomal protein S3a RSPS3A P61247 −1.28
↓ 40S ribosomal protein S9 RPS9 P46781 −1.27
↓ 4F2 cell-surface antigen heavy chain SLC3A2 P08195 −1.63
↓ 60S acidic ribosomal protein P0 RPLP0 P05388 −1.29
↓ 60S ribosomal protein L10a RPL10A P62906 −1.27
↓ 60S ribosomal protein L11 RPL11 P62913 −1.37
↓ 60S ribosomal protein L17 RPL17 P18621 −1.23
↓ 60S ribosomal protein L5 RLP5 P46777 −1.20
↓ Actin, cytoplasmic 2 ACTG1 P63261 −1.23
↓ Actin-related protein 2/3 complex subunit 2 ARPC2 O15144 −1.39
↓ Actin-related protein 3 ACTR3 P61158 −1.22
↓ Aspartate–tRNA ligase, cytoplasmic DARS P14868 6.1.1.12 −1.32
↓ ATP synthase subunit alpha, mitochondrial ATP5A1 P25705 −1.47
↓ ATP synthase subunit beta, mitochondrial ATP5B P06576 −1.52 −1.41 (0.008)
↓ Bifunctional purine biosynthesis protein PURH ATIC P31939 2.1.2.3 −1.35
↓ Caprin-1 CAPRIN1 Q14444 −1.26
↓ Coronin-1C CORO1C Q9ULV4 −1.29
↓ DNA replication licensing factor MCM2 MCM2 P49736 3.6.4.12 −1.31
↓ DNAJ homolog subfamily A member 1 DNAJA1 P31689 −1.30
↓ Elongation factor 1-beta EEF1B2 P24534 −1.79
↓ Eukaryotic initiation factor 4A-I EIF4A1 P60842 3.6.4.13 −1.21 −1.73
↓ Eukaryotic initiation factor 4A-III EIF4A3 P38919 3.6.4.13 −1.25 −2.05
↓ Eukaryotic translation initiation factor 3 subunit F EIF3F O00303 3.4.19.12 −1.49 −1.5 (0.018)
↓ Eukaryotic translation initiation factor 4 gamma 1 EIF4G1 Q04637 −1.31 −1.15 (0.18)
↓ Glutathione S-transferase omega-1 GSTO1 P78417 2.5.1.18, 1.8.5.1, 1.20.4.2 −1.99
↓ Glutathione S-transferase P GSTP1 P09211 2.5.1.18 −1.26
↓ Guanine nucleotide-binding protein subunit beta-2-like 1 GNB2L1 P63244 −1.55
↓ Heterogeneous nuclear ribonucleoprotein Q SYNCRIP O60506 −1.28 −1.3 (0.031)
↓ Importin subunit alpha-2 KPNA2 P52292 −1.95
↓ Importin subunit beta-1 KPNB1 Q14974 −1.35 −1.33 (0.28)
↓ Inosine-5’-monophosphate dehydrogenase 2 IMPDH2 P12268 1.1.1.205 −1.47
↓ Interleukin enhancer-binding factor 2 ILF2 Q12905 −1.23
↓ Nucleolar and coiled-body phosphoprotein 1 NOLC1 Q14978 −1.25
↓ Nucleolar RNA helicase 2 isoform 1 DDX21 Q9NR30 3.6.4.16 −1.33
↓ Phosphate carrier protein, mitochondrial SLC25A3 Q00325 −1.37
↓ Polyadenylate-binding protein 1 PABPC1 P11940 −1.30 −1.11 (0.063)
↓ Probable ATP-dependent RNA helicase DDX5 DDX5 P17844 3.6.4.13 −1.27
↓ Proliferating cell nuclear antigen PCNA P12004 −1.32 −2.68
↓ Proteasome subunit alpha type-5 PSMA5 P28066 3.4.25.1 −1.32
↓ Protein-L-isoaspartate(D-aspartate) O-methyltransferase PCMT1 P22061 2.1.1.77 −1.25
↓ Putative RNA-binding protein 3 RBM3 P98179 −1.46
↓ Ras GTPase-activating protein-binding protein 1 G3BP1 Q13283 3.6.4.12 −1.47
↓ Ras-related C3 botulinum toxin substrate 2 RAC2 P15153 −1.23
↓ Ribosome maturation protein SBDS SBDS Q9Y3A5 −1.26
↓ RNA-binding protein FUS FUS P35637 −1.29 −1.64 (0.118)
↓ rRNA 2’-O-methyltransferase fibrillarin FBL P22087 2.1.1.- −1.23
↓ Scaffold attachment factor B2 SAFB2 Q14151 −1.26
↓ Signal recognition particle 9 kDa protein SRP9 P49458 −1.22
↓ Small nuclear ribonucleoprotein Sm D2 SNRPD2 P62316 −1.26
↓ SUMO-activating enzyme subunit 1 SAE1 Q9UBE0 −1.29
↓ T-complex protein 1 subunit alpha TCP1 P17987 −1.29
↓ T-complex protein 1 subunit delta CCT4 P50991 −1.20
↓ T-complex protein 1 subunit eta CCT7 Q99832 −1.24 −1.43 (0.082)
↓ T-complex protein 1 subunit theta CCT8 P50990 −1.24
↓ X-ray repair cross-complementing protein 5 XRCC5 P13010 3.6.4.- −2.16
↓ X-ray repair cross-complementing protein 6 XRCC6 P12956 3.6.4.- −1.41 −1.49 (0.078)
Only detected in GFP cell RuvB-like 2 RUVBL2 Q9Y230 (spot 22)
↑ Protein–glutamine gamma-glutamyltransferase 2 TGM2 P21980 2.3.2.13 1.51 (spot 8) 1.36 2.23
↑ Geranylgeranyl transferase type-2 subunit alpha RABGGTA Q92696 2.5.1.60 1.54 (spot 9)
↑ Plastin-2 LCP1 P13796 2.59 (spot 10) 1.77 2.68
↑ Heat shock protein 105 kDa HSPH1 Q92598 1.74 (spot 11)
↑ Methionine–tRNA ligase MARS P56192 6.1.1.10 1.75 (spot 12)
↑ Insulin-degrading enzyme IDE P14735 3.4.24.56 1.72 (spot 13)
↑ Endoplasmic reticulum aminopeptidase ERAP1 Q9NZ08 3.4.11.- 1.72 (spot 13)
↑ Moesin MSN P26038 1.72 (spot 14) 1.11 (0.12)
↑ Prelamin-A/C LMNA P02554 1.72 (spot 14) 1.21 (0.026)
↑ Succinate dehydrogenase SDHA P31040 1.3.5.1 1.93 (spot 15)
↑ Heterogeneous nuclear ribonucleoprotein H HNRNPH1 P31943 1.61 (spot 16) 1.09 (0.46) −1.3 (0.039)
↑ Sorting nexin-6 SNX6 Q9UNH7 1.61 (spot 16)
↑ Synaptic vesicle membrane protein VAT-1 homolog VAT1 Q99536 2.35 (spot 17) 1.3 (0.25)
↑ Thioredoxin reductase 1 TXNRD1 Q16881 1.8.1.9 1.56 (spot 18) 1.44 (0.017)
Conflicting data S-adenosylmethionine synthase isoform type-2 MAT2A P31153 2.5.1.6 1.53 (spot 19) −1.53
↑ Elongation factor 1-gamma EEF1G P26641 1.53 (spot 19) 1.13 (0.080)
↑ Leukotriene A-4 hydrolase LTA4H P09960 3.3.2.6 1.61 (spot 20)
↑ BAG family molecular chaperone regulator 2 BAG2 O95816 2.12 (spot 21)
↑ Aldose reductase AKR1B1 P15121 1.1.1.21 1.56 (spot 23) 1.36 1.4 (0.181)
↑ LIM and SH3 domain protein 1 LASP1 Q14847 1.56 (spot 23) 1.56 (0.051) 1.88 (0.065)
↑ Heat shock protein beta-1 HSPB1 P04792 1.73 (spot 24) 1.64
↑ 10 kDa Heat shock protein, mitochondrial HSPE1 P61604 2.11
↑ 60 kDa Heat shock protein, mitochondrial HSPD1 P10809 1.02 (0.41) 1.61
↑ 78 kDa Glucose-regulated protein HSPA5 P11021 1.17 (0.042) 1.89
↑ Activated RNA polymerase II transcriptional coactivator p15 SUB1 P53999 1.21
↑ Annexin A1 ANXA1 P04083 1.66
↑ AP-2 complex subunit beta AP2B1 P63010 1.35
↑ ATP-citrate synthase ACLY P53396 2.3.3.8 1.09 (0.002) 1.69
↑ B-cell receptor-associated protein 31 BCAP31 P51572 1.23
↑ Calmodulin CALM1 P62158 2.03
↑ Calpain small subunit 1 CAPNS1 P04632 1.18 (0.034) 2.06
↑ Calpastatin CAST P20810 1.55
↑ Calponin-3 CNN3 Q15417 1.46 2.11
↑ Calreticulin CALR P27797 1.25 1.24 (0.298)
↑ Cathepsin D CTSD P07339 3.4.23.5 1.80 3.16
↑ Clathrin light chain A CLTA P09496 1.28
↑ Copine-1 CPNE1 Q99829 1.61
↑ Cystatin-B CSTB P04080 1.39
↑ Extended synaptotagmin-1 ESYT1 Q9BSJ8 1.71
↑ F-actin-capping protein subunit alpha-1 CAPZA1 P52907 2.03
↑ Far upstream element-binding protein 1 FUBP1 Q96AE4 1.42
↑ Galectin-1 LGALS1 P09382 1.29 (0.388) 1.67
↑ Galectin-3 LGALS3 P17931 1.30
↑ Galectin-3-binding protein precursor LGALS3BP Q08380 1.21
↑ Gamma-enolase ENO2 P09104 4.2.1.11 1.32 1.33 (0.13)
↑ Glucose-6-phosphate 1-dehydrogenase G6PD P11413 1.1.1.49 1.23
↑ Glucosidase 2 subunit beta PRKCSH P14314 1.23 1.87 (0.076)
↑ HLA class I histocompatibility antigen, A-2 alpha chain HLA-A P01892 1.03 (0.101) 2.01
↑ HLA class I histocompatibility antigen, A-2 alpha chain HLA-A P01892 2.01
↑ Hydroxyacyl-coenzyme A dehydrogenase, mitochondrial HADH Q16836 1.1.1.35 1.69
↑ Importin-9 IPO9 Q96P70 1.39
↑ Inhibitor of nuclear factor kappa-B kinase-interacting protein IKBIP Q70UQ0 1.85
↑ Leukocyte elastase inhibitor SERPINB1 P30740 1.29
↑ Macrophage migration inhibitory factor MIF P14174 5.3.2.1 1.12 (0.628) 2.49
↑ Malate dehydrogenase, mitochondrial MDH2 P40926 1.1.1.37 1.38 1.91
↑ Non-histone chromosomal protein HMG-17 HMGN2 P05204 1.33
↑ Nuclear ubiquitous casein and cyclin-dependent kinase substrate 1 NUCKS1 Q9H1E3 1.62
↑ PDZ and LIM domain protein 1 PDLIM1 O00151 1.32
↑ Peptidyl–prolyl cis–trans isomerase FKBP1A FKBP1A P62942 5.2.1.8 2.64
↑ Peptidyl–prolyl cis–trans isomerase FKBP3 FKBP3 Q00688 5.2.1.8 1.31
↑ Peroxiredoxin-1 PRDX1 Q06830 1.11.1.15 1.14 (0.221) 1.64
↑ Peroxiredoxin-4 PRDX4 Q13162 1.11.1.15 1.24
↑ Phosphatidylethanolamine-binding protein 1 PEBP1 P30086 1.69
↑ Plastin-3 PLS3 P13797 1.22 (0.133) 2.16
↑ Proteasome subunit alpha type-7 PSMA7 O14818 3.4.25.1 1.60
↑ Septin-6 SEPT6 Q14141 1.66
↑ SH3 domain-binding glutamic acid-rich-like protein 3 SH3BGRL3 Q9H299 1.77
↑ Stathmin STMN1 P16949 1.46 1.94
↑ Superoxide dismutase [Cu–Zn] SOD1 P00441 1.15.1.1 1.87
↑ Thioredoxin TXN P10599 1.55
↑ Thymidylate kinase DTYMK P23919 2.7.4.9 1.37
↑ Thymosin beta-10 TMSB10 P63313 2.26
↑ Thymosin beta-4 TMSB4X P62328 2.70
↑ Tropomyosin alpha-4 chain TPM4 P67936 1.28
↑ Tubulin-specific chaperone A TBCA O75347 1.61
↑ Ubiquitin carboxyl-terminal hydrolase isozyme L3 UCHL3 P15374 3.4.19.12 1.25 (0.128) 1.60