No. Uniprot Accession Protein Name Peptide Count HepG2 Total Spectra L02 Total Spectra HepG2 Total Spectra/L02 Total Spectra
1 Q13308 Inactive tyrosine-protein kinase 7 2 9 0 100
2 P54687 Branched-chain-amino-acid aminotransferase, cytosolic 2 4 0 100
3 Q15818 Neuronal pentraxin-1 1 9 0 100
4 O43399 Tumor protein D54 1 6 0 100
5 Q13433 Zinc transporter ZIP6 1 6 0 100
6 P05186 Alkaline phosphatase, tissue-nonspecific isozyme 1 5 0 100
7 P36941 Tumor necrosis factor receptor superfamily member 3 1 5 0 100
8 O15118 Niemann-Pick C1 protein 1 4 0 100
9 P09923 Intestinal-type alkaline phosphatase 1 4 0 100
10 P17936 Insulin-like growth factor-binding protein 3 1 4 0 100
11 P28300 Protein-lysine 6-oxidase 1 4 0 100
12 Q17RY6 Lymphocyte antigen 6K 1 4 0 100
13 O75197 Low-density lipoprotein receptor-related protein 5 1 3 0 100
14 O75503 cDNA FLJ90628 fis, clone PLACE1003407, highly similar to Ceroid-lipofuscinosis neuronal protein 5 1 3 0 100
15 P01033 Metalloproteinase inhibitor 1 1 3 0 100
16 P28799 Granulins 1 3 0 100
17 P32969 60S ribosomal protein L9 1 3 0 100
18 P43121 Cell surface glycoprotein MUC18 1 3 0 100
19 P50897 Palmitoyl-protein thioesterase 1 1 3 0 100
20 Q00839 Heterogeneous nuclear ribonucleoprotein U 1 3 0 100
21 Q29983 MHC class I polypeptide-related sequence A 1 3 0 100
22 Q99808 Equilibrative nucleoside transporter 1 1 3 0 100
23 P30530 Tyrosine-protein kinase receptor UFO 1 2 0 100
24 P32970 CD70 antigen 1 2 0 100
25 Q8NAV9 cDNA FLJ34690 fis, clone MESAN2000894 1 2 0 100
26 Q8NEY1 Neuron navigator 1 1 2 0 100
27 Q8WWB7 Lysosomal protein NCU-G1 1 2 0 100
28 Q92896 Golgi apparatus protein 1 2 6 1 6
29 P00533 Epidermal growth factor receptor 2 25 6 4.16
30 P48960 CD97 antigen 4 49 12 4.08
31 Q15003 Condensin complex subunit 2 1 12 3 4
32 P24043 Laminin subunit alpha-2 1 22 6 3.66
33 P11117 Lysosomal acid phosphatase 2 10 3 3.33
34 Q30201 Hereditary hemochromatosis protein 1 12 4 3
35 Q9H3G5 Probable serine carboxypeptidase CPVL 1 6 2 3
36 P58743 Prestin 1 3 1 3
37 Q8TCT8 Signal peptide peptidase-like 2A 1 11 4 2.75
38 P07942 Laminin subunit beta-1 3 13 5 2.6
39 Q92945 Far upstream element-binding protein 2 1 13 5 2.6
40 O43852 Calumenin 2 7 3 2.33
41 O60568 Procollagen-lysine,2-oxoglutarate 5-dioxygenase 3 2 8 4 2
42 P04406 Glyceraldehyde-3-phosphate dehydrogenase 1 24 12 2
43 O75976 Carboxypeptidase D 1 6 3 2
44 Q9H6X2 Anthrax toxin receptor 1 1 6 3 2
45 O96005 Cleft lip and palate transmembrane protein 1 1 4 2 2
46 Q08722 Leukocyte surface antigen CD47 1 4 2 2
47 Q13641 Trophoblast glycoprotein 1 4 2 2
48 Q5SZJ2 Heparin sulfate proteoglycan 2 1 2 1 2
49 P14625 Endoplasmin 4 14 29 0.48
50 O00592 Podocalyxin 1 5 11 0.45
51 P07711 Cathepsin L1 2 4 9 0.44
52 Q12797 Aspartyl/asparaginyl beta-hydroxylase 2 3 7 0.42
53 P43308 Translocon-associated protein subunit beta 1 3 7 0.42
54 Q14108 Lysosome membrane protein 2 3 11 26 0.42
55 Q8IWA5 Choline transporter-like protein 2 1 2 5 0.4
56 Q9H6B4 CXADR-like membrane protein 1 2 5 0.4
57 P32004 Neural cell adhesion molecule L1 5 9 23 0.39
58 Q8TCJ2 Dolichyl-diphosphooligosaccharide--protein glycosyltransferase subunit STT3B 2 12 31 0.38
59 P01861 Ig gamma-4 chain C region 2 5 13 0.38
60 P07602 Proactivator polypeptide 7 18 48 0.37
61 P04062 Glucosylceramidase 2 7 19 0.37
62 Q9HDC9 Adipocyte plasma membrane-associated protein 2 4 11 0.36
63 P14314 Glucosidase 2 subunit beta 1 3 9 0.33
64 Q01081 Splicing factor U2AF 35 kDa subunit 1 2 6 0.33
65 Q70UQ0 Inhibitor of nuclear factor kappa-B kinase-interacting protein 1 1 3 0.33
66 P46977 Dolichyl-diphosphooligosaccharide--protein glycosyltransferase subunit STT3A 1 14 44 0.32
67 Q9Y639 Neuroplastin 3 5 17 0.29
68 P11717 Cation-independent mannose-6-phosphate receptor 4 4 14 0.28
69 P15586 N-acetylglucosamine-6-sulfatase 2 4 16 0.25
70 O14773 Tripeptidyl-peptidase 1 1 1 4 0.25
71 O75882 Attractin 1 1 4 0.25
72 O95297 Myelin protein zero-like protein 1 1 1 4 0.25
73 P23229 Integrin alpha-6 1 1 4 0.25
74 Q13421 Mesothelin 3 6 27 0.22
75 Q15165 Serum paraoxonase/arylesterase 2 1 3 14 0.21
76 P26006 Integrin alpha-3 6 4 19 0.21
77 Q5ZPR3 CD276 antigen 3 2 11 0.18
78 P43251 Biotinidase 1 2 11 0.18
79 O00469 Procollagen-lysine,2-oxoglutarate 5-dioxygenase 2 3 2 12 0.17
80 O14672 Disintegrin and metalloproteinase domain-containing protein 10 2 1 10 0.1
81 P05026 Sodium/potassium-transporting ATPase subunit beta-1 1 1 11 0.09
82 Q92542 Nicastrin 5 0 35 0
83 P15328 Folate receptor alpha 4 0 33 0
84 O15031 Plexin-B2 3 0 7 0
85 P10909 Clusterin 2 0 15 0
86 O76082 Solute carrier family 22 member 5 2 0 7 0
87 Q4G148 Glucosidexylosyltransferase 1 2 0 7 0
88 Q99538 Legumain 2 0 7 0
89 P41221 Protein Wnt-5a 2 0 6 0
90 Q99715 Collagen alpha-1(XII) chain 2 0 6 0
91 Q9P273 Teneurin-3 2 0 5 0
92 Q9HAT2 Sialate O-acetylesterase 2 0 4 0
93 P22309 UDP-glucuronosyltransferase 1-1 1 0 220 0
94 Q96JK2 DDB1- and CUL4-associated factor 5 1 0 35 0
95 P62937 Peptidyl-prolyl cis-trans isomerase A 1 0 32 0
96 Q8NFQ8 Torsin-1A-interacting protein 2 1 0 12 0
97 P43007 Neutral amino acid transporter A 1 0 10 0
98 Q5VW38 Protein GPR107 1 0 10 0
99 A8MWK3 Cadherin 2, type 1, N-cadherin (neuronal) 1 0 8 0
100 P05362 Intercellular adhesion molecule 1 1 0 8 0
101 Q6P4E1 Protein CASC4 1 0 8 0
102 Q8N766 Uncharacterized protein KIAA0090 1 0 8 0
103 Q8TEM1 Nuclear pore membrane glycoprotein 210 1 0 8 0
104 Q9H0X4 Protein ITFG3 1 0 8 0
105 P08842 Steryl-sulfatase 1 0 7 0
106 P07954 Fumaratehydratase, mitochondrial 1 0 6 0
107 P08648 Integrin alpha-5 1 0 6 0
108 Q32P28 Prolyl 3-hydroxylase 1 1 0 6 0
109 Q68CQ7 Glycosyltransferase 8 domain-containing protein 1 1 0 6 0
110 Q9H330 Transmembrane protein C9orf5 1 0 6 0
111 Q8WXI7 Mucin-16 1 0 5 0
112 O00468 Agrin 1 0 4 0
113 O95857 Tetraspanin-13 1 0 4 0
114 P16278 Beta-galactosidase 1 0 4 0
115 Q02388 Collagen alpha-1(VII) chain 1 0 4 0
116 Q92626 Peroxidasin homolog 1 0 4 0
117 Q9BY67 Cell adhesion molecule 1 1 0 4 0
118 B7Z553 cDNA FLJ51266, highly similar to Vitronectin 1 0 3 0
119 E9PQH3 Zinc finger protein 585B 1 0 3 0
120 F5GYS1 Protein phosphatase 2, regulatory subunit B', delta 1 0 3 0
121 P08473 Neprilysin 1 0 3 0
122 P11166 Solute carrier family 2, facilitated glucose transporter member 1 1 0 3 0
123 P12259 Coagulation factor V 1 0 3 0
124 P13674 Prolyl 4-hydroxylase subunit alpha-1 1 0 3 0
125 P19075 Tetraspanin-8 1 0 3 0
126 P21589 5'-nucleotidase 1 0 3 0
127 P35052 Glypican-1 1 0 3 0
128 P48307 Tissue factor pathway inhibitor 2 1 0 3 0
129 P55058 Phospholipid transfer protein 1 0 3 0
130 Q9BVX2 Transmembrane protein 106C 1 0 3 0
131 Q9NXH8 Torsin-4A 1 0 3 0
132 D6RA51 Toll-like receptor 3 1 0 2 0
133 P54709 Sodium/potassium-transporting ATPase subunit beta-3 1 0 2 0
134 P55268 Laminin subunit beta-2 1 0 2 0
135 Q13332 Receptor-type tyrosine-protein phosphatase S 1 0 2 0
136 Q13443 Disintegrin and metalloproteinase domain-containing protein 9 1 0 2 0
137 Q13586 Stromal interaction molecule 1 1 0 2 0
138 Q5JRA6 Melanoma inhibitory activity protein 3 1 0 2 0
139 Q86SE7 Tissue factor 1 0 2 0
140 Q8N697 Solute carrier family 15 member 4 1 0 2 0
141 Q8NA58 Poly(A)-specific ribonuclease PARN-like domain-containing protein 1 1 0 2 0
142 Q96K49 Transmembrane protein 87B 1 0 2 0
143 Q9P2B2 Prostaglandin F2 receptor negative regulator 1 0 2 0
144 Q9Y2C2 Uronyl 2-sulfotransferase 1 0 2 0
Proteins with spectral count ratio above 2 and below 0.2 were shown here. For protein uniquely identified from one sample, at least two matched spectra were required to report here. Please see Table S2 for the complete list.
Column A shows the index of identified glycopeptides
Column B shows the IPI accession of identified glycoproteins.
Column C shows the Uniprot Accession of identified glycoproteins.
Column D shows the names of identified glycoproteins.
Column E shows the number of glycopeptide identified from each glycoprotein.
Column F and G shows the combined spectra counts for each protein in HepG2 sample and L02 sample, respectively.
Column H shows spectra ratio of each glycoprotein between HepG2 and L02 cells. For the proteins only identified from HepG2 cells, an arbitrarily number 100 is assigned.
Table 2: Label-free quantification of identified glycoproteins (partial).