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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
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Molecular Brain

ISSN: 1756-6606