Skip to main content

Advertisement

Table 2 Final list of proteins filtered from the complete list of confidently identified proteins*

From: An iTRAQ-based proteomic analysis reveals dysregulation of neocortical synaptopodin in Lewy body dementias

ID N Unused %Cov(95) Name Peptides
(95%)
GM
(DLB/Control)
%CV GM
(PDD/Control)
%CV GM
(Dementias/Control)
%CV
P04406 20 59.4 61.5 G3P_HUMAN Glyceraldehyde-3-phosphate dehydrogenase GN = GAPDH 67 1.08 6.8 1.09 5.0 1.03 6.5
P08670 56 38.0 43.6 VIME_HUMAN Vimentin GN = VIM 26 1.24 8.7 0.86 6.8 1.03 8.8
P11137 81 29.9 11.9 MAP2_HUMAN Microtubule-associated protein 2 GN = MAP2 16 0.81 6.8 0.72 7.1 0.76 8.6
P13591 119 23.4 16.1 NCAM1_HUMAN Neural cell adhesion molecule 1 GN = NCAM1 17 1.05 5.7 0.99 7.3 0.98 7.0
P20336 167 19.7 52.7 RAB3A_HUMAN Ras-related protein Rab-3A GN = RAB3A 18 0.98 15.5 0.95 14.1 0.97 15.8
P60880 184 18.6 50.0 SNP25_HUMAN Synaptosomal-associated protein 25 GN = SNAP25 18 0.97 3.1 0.95 2.9 1.00 2.3
Q5HY54 186 18.3 3.2 Q5HY54_HUMAN Filamin A, alpha (Actin binding protein 280) GN = FLNA 7 0.96 2.2 0.75 2.1 0.83 0.6
A8K0Y4 241 15.3 39.4 A8K0Y4_HUMAN cDNA FLJ75013 GN = GAP43 12 1.11 11.0 1.09 11.5 1.08 12.2
P09211 242 15.3 48.6 GSTP1_HUMAN Glutathione S-transferase P GN = GSTP1 10 1.15 7.0 1.19 7.7 1.30 7.7
P60201 293 13.6 19.9 MYPR_HUMAN Myelin proteolipid protein GN = PLP1 24 1.18 2.6 1.24 2.6 1.22 0.3
Q4W5L2 359 11.7 65.7 Q4W5L2_HUMAN Putative uncharacterized protein SNCA (Fragment) GN = SNCA 6 0.99 1.6 1.08 1.6 1.08 0.4
P00441 369 11.5 69.5 SODC_HUMAN Superoxide dismutase [Cu-Zn] GN = SOD1 7 1.12 12.9 1.07 15.2 1.20 15.2
P08247 403 10.9 17.9 SYPH_HUMAN Synaptophysin GN = SYP 12 1.07 3.0 1.04 4.0 1.12 0.7
P12111 413 10.6 1.4 CO6A3_HUMAN Collagen alpha-3(VI) chain GN = COL6A3 4 1.02 3.1 0.58 5.7 0.78 3.4
Q9GZV7 419 10.4 17.4 HPLN2_HUMAN Hyaluronan and proteoglycan link protein 2 GN = HAPLN2 6 1.32 4.6 1.33 4.3 1.39 4.8
Q9BSJ8 475 9.4 4.6 ESYT1_HUMAN Extended synaptotagmin-1 GN = ESYT1 4 1.04 5.1 1.02 5.0 1.02 5.4
A7MD96 483 9.3 8.2 A7MD96_HUMAN SYNPO protein (Fragment) GN = SYNPO 4 0.62 5.8 0.59 3.0 0.63 1.7
P51674 568 8.0 13.0 GPM6A_HUMAN Neuronal membrane glycoprotein M6-a GN = GPM6A 5 1.05 12.5 1.18 12.0 1.34 13.4
P05067 675 6.6 5.5 A4_HUMAN Amyloid beta A4 protein GN = APP 3 1.03 6.8 1.02 8.5 0.95 7.9
Q8N9I0 1154 3.8 10.0 SYT2_HUMAN Synaptotagmin-2 GN = SYT2 4 1.21 11.7 1.22 15.3 1.17 14.6
O43581 1180 3.7 2.7 SYT7_HUMAN Synaptotagmin-7 GN = SYT7 2 0.98 8.1 0.98 7.9 0.91 10.1
Q8IV01 1198 3.5 5.7 SYT12_HUMAN Synaptotagmin-12 GN = SYT12 2 0.77 7.6 0.86 0.4 0.80 0.8
  1. *The list contains 22 proteins with the quantization ratios for DLB, PDD and Dementias group with respect to control. Each group except ‘Dementias’ (label: 119) was labeled with two iTRAQ labels (control: 113, 116; DLB: 114, 117; PDD, 115, 118). Geometric means (GM) and % co-efficient of variation (% CV) were calculated from four ratios for DLB, PDD and from two ratios for the ‘Dementias’ group. The ratios in bold have qualified through the rigorous filtration criteria. The extent and trend of deregulation was largely similar for majority of the proteins between DLB and PDD. VIM was the only protein exhibiting opposite regulation between DLB and PDD. The protein names in bold were validated by immunoblot analysis of pooled lysates. ID, Uniprot identification; %Cov (95),%Coverage(95); GN, gene symbol