Review
Copyright ©The Author(s) 2016.
World J Gastroenterol. Oct 7, 2016; 22(37): 8283-8293
Published online Oct 7, 2016. doi: 10.3748/wjg.v22.i37.8283
Table 1 Summary of recent proteomic analyses of gastric cancer
SampleMeasurandMass spectrometryIdentification/quantificationRef.
Tissue samples
GC tissueGlobal proteomeMALDI TOF/TOF, LTQ Orbitrap XLLabel-free, MascotBalluff et al[16], 2011
GC tissueGlobal proteomeQ-TOFO18/O16, MassLynx (v4.0)Zhang et al[73], 2013
GC tissueGlobal proteomeLTQ OrbitrapLabel-free, ProLuCID (v1.3)Aquino et al[74], 2014
GC tissueGlobal proteomeMALDI TOF/TOFLabel-free, Mascot (v2.2)Wu et al[75], 2014
GC tissueGlobal proteomeLTQ Orbitrap XLLabel-free, Mascot (v2.2)Ichikawa et al[38], 2015
GC tissueGlobal proteomeLTQ Orbitrap XLLabel-free, Bioworks Browser (v3.3.1), Trans-Proteomic Pipeline (v4.0)Shen et al[76], 2015
GC tissueMembrane proteomeLTQ Orbitrap VelosTMT, MaxQuant (v1.2.2.5)Gao et al[31], 2015
Gastroesophageal malignancyGlobal proteomeMALDI TOF/TOFiTRAQ, MascotSinghal et al[14], 2013
Serum samples
Sera from GC patientsSerum proteomeMALDI-TOF LTQ Orbitrap XL MS/MSLabel-free, Autoflex, Peptide mass fingerprintingFan et al[37], 2013
Sera from GC patientsSerum proteomeTriple TOF 5600Multiple reaction monitoringHumphries et al[59], 2014
Sera from GC patientsSerum proteomeMALDI-TOF Orbitrap Q-ExactiveLabel-free, MaxQuant (v1.4.1.1)Abramowicz et al[50], 2015
Sera from GC patientsSerum proteomeLTQ Orbitrap VelosiTRAQ, SEQUSET HT, Mascot (v2.2)Subbannayya et al[29], 2015
Sera from GC patientsSerum proteomeSELDI TOF MS MALDI TOF/TOFLabel-free, MascotSong et al[17], 2016
Cell lines
BGC823, MKN45, SCG7901Global proteomeMALDI TOF/TOFLabel-free, MascotCai et al[71], 2013
AGS, AZ521, FU97, MKN7, MKN74, NCI-N87, SNU16, YCC1, YCC2, YCC3, YCC9Global proteomeMALDI TOF/TOFiTRAQ, ProteinPilotHou et al[69], 2013
AGSGlobal proteomeQ-TOFiTRAQ, Mascot (v2.1.1)Hu et al[72], 2013
MKN45Global proteomeMALDI TOF/TOFLabel-free, MascotHu et al[13], 2013
OCUM-2MD3, OCUM-12Global proteomeQ-TOFiTRAQ, ProteinPilotMorisaki et al[28], 2014
AGS, BGC823, MKN45, SGC7901Global proteomeMALDI TOF/TOFLabel-free, Peptide mass fingerprintingYang et al[67], 2014
HGC27, MGC803, SGC7901Global proteomeLTQ OrbitrapLabel-free, Mascot (v2.3.2), Scaffold (v4.0.5), X! Tandem CYCLONE (v2010.12.01.1)Qiao et al[62], 2015
AGSGlobal proteomeQ-TOFiTRAQ, Mascot (v2.3.2)Lin et al[61], 2015
HGC27Global proteomeTriple TOF 5600iTRAQ, Mascot (v2.3.2)Chen et al[77], 2016
AGS, MKN7SecretomeMALDI TOF/TOFiTRAQ, ProteinPilotLoei et al[51], 2011
AGS, KATO III, NCI-N87, SNU1, SNU5, SNU16SecretomeLTQ Orbitrap VelosSILAC, Proteome Discoverer (v1.3.0.339), Mascot, SEQUESTMarimuthu et al[33], 2013
AGS, KATO III, SNU1, SNU5, MKN7, IM95Membrane proteomeLTQ-FT UltraLabel-free, Trans-Proteomic Pipeline, Mascot (v2.2.07)Guo et al[68], 2012
AGS, IM95, KATO3, MKN7, MKN28, MKN45, NUGC3, NUGC4, SCH, SNU1, SNU5, SNU16Membrane proteomeQ-TOFiTRAQ, ProteinPilotYang et al[70], 2012
AGS, HGC27, KATO III, MKN45, NUGC3, SCH, SGC7901, SNU5, SNU484, TSK1Membrane proteomeQ-TOFiTRAQ, ProteinPilotGoh et al[60], 2015
Multidrug-resistant GC cell lines: GC7901/VCR, SGC7902/ADRSurface glycoproteomeLTQ Orbitrap XLTriplex stable isotope dimethyl labeling, Mascot, MSQuant (v2.0a81)Li et al[47], 2013
AGSInteractomeLTQ Orbitrap VelosLabel-free, Mascot (v2.2.2)Yu et al[57], 2013
AGSPhosphoproteomeMALDI TOF/TOFSILAC, Mascot (v2.1)Holland et al[43], 2011
AGSPhosphoproteomeLTQ Orbitrap XLSILAC, MaxQuant (v1.3.0.5)Glowinski et al[42], 2014
Table 2 Cell line-based summary of recent proteomic analyses of gastric cancer
Cell lineRef.Aim of studyProteins analyzedValidation1
AGSHolland et al[43], 2011Phosphoproteome upon H. pylori infection20 altered in abundance by H. pyloriNo
Loei et al[51], 2011Secretome of AGS and MKN743 differedIHC/WB
Guo et al[68], 2012Plasma membrane proteome1473 identifiedIHC
Hou et al[69], 2013Biomarkers for GC metastasis19 increased and 34 decreased in metastasisIHC/WB
Hu et al[72], 2013Global profile of miR-148a-regulated proteins55 altered by miR-148aWB
Marimuthu et al[33], 2013Secretome263 increased and 45 decreased in GCIHC
Yu et al[57], 2013Interactome of VCP288 putative partners, including 18 PI3K/Akt proteinsWB
Glowinski et al[42], 2014Tyrosine signaling upon H. pylori transfection85 altered by H. pyloriNo
Goh et al[60], 2015Membrane proteome of 11 GC cell lines882 altered, including 57 increased in ≥ 6 cell linesWB
Lin et al[61], 2015Tanshinone IIA regulation102 altered by tanshinone IIA treatmentWB
BGC-823Cai et al[71], 2013Effects of curcumin on viability and apoptosis75 altered by curcumin treatmentNo
HGC-27Goh et al[60], 2015Membrane proteome of 11 GC cell lines882 altered, including 57 increased in ≥ 6 cell linesWB
Qiao et al[62], 2015Proteomes of three GC cell lines9 alteredIHC/WB
Chen et al[77], 2016Proteome with FAF1 or H. pylori157 altered by FAF1, 500 by H. pylori and 246 by bothWB
MGC-803Qiao et al[62], 2015Proteomes of three GC cell lines9 alteredIHC/WB
MKN7Loei et al[51], 2011Secretome of AGS and MKN743 differedIHC/WB
Guo et al[68], 2012Plasma membrane proteome1473 identifiedIHC
Yang et al[70], 2012Membrane proteome175 alteredIHC/WB
MKN45Hu et al[13], 2013Proteome changes following CXCR1 knockdown16 increased and 13 decreased by CXCR1 knockdownWB
Yang et al[67], 2014Proteome changes following NAIF1 overexpression5 increased and 3 decreased by NAIF1 overexpressionWB
Goh et al[60], 2015Membrane proteome of 11 GC cell lines882 altered, including 57 increased in ≥ 6 cell linesWB
SGC-7901Li et al[47], 2013Cell surface glycoproteome of MDR11 altered in MDR cell linesWB
Goh et al[60], 2015Membrane proteome of 11 GC cell lines882 altered, including 57 increased in ≥ 6 cell linesWB
Qiao et al[62], 2015Proteomes of three GC cell lines9 alteredIHC/WB