Table 2.
Top 20 signifi cant proteins in Down syndrome, early-onset and late-onset AD for ‘plaque vs. non-plaque’ pairwise comparisons.
| Down syndrome - Plaque vs Non-plaque | ||||||
|---|---|---|---|---|---|---|
| Uniprot Accession ID | Gene name | Name | p-value | Fold Change | Change in EOAD | Change in LOAD |
| Increased | ||||||
| Q9BXS0 | COL25A1 | Collagen alpha-1(XXV) chain | 2.51E-12 | 129.5 | ↑ | ↑ |
| Aβ | 8.16E-09 | 32.5 | ↑ | ↑ | ||
| Q92743 | HTRA1 | Serine protease HTRA1 | 2.24E-09 | 8.1 | ↑ | ↑ |
| P02649 | APOE | Apolipoprotein E | 8.6E-13 | 8.0 | ↑ | ↑ |
| O94985 | CLSTN1 | Calsyntenin-1 | 4.12E-12 | 3.3 | ↑ | ↑ |
| P05067 | APP | Amyloid-beta precursor protein | 1.07E-09 | 3.2 | ↑ | ↑ |
| P35052 | GPC1 | Glypican-1 | 9.46E-09 | 2.9 | ↑ | ↑ |
| P10909 | CLU | Clusterin | 7.95E-09 | 2.6 | ↑ | ↑ |
| O14558 | HSPB6 | Heat shock protein beta-6 | 7.59E-10 | 1.9 | ↑ | ↑ |
| P08670 | VIM | Vimentin | 6.01E-09 | 1.8 | ↑ | ↑ |
| Decreased | ||||||
| P0DP58 | LYNX1 | Ly-6/neurotoxin-like protein 1 | 5.39E-06 | 3.3 | ↓ | ↓ |
| P42677 | RPS27 | 40S ribosomal protein S27 | 4.11E-05 | 1.9 | ↓ | |
| Q9GZV7 | HAPLN2 | Hyaluronan and proteoglycan link protein 2 | 3E-06 | 1.9 | ↓ | ↓ |
| P10915 | HAPLN1 | Hyaluronan and proteoglycan link protein 1 | 2.03E-07 | 1.9 | ↓ | ↓ |
| P62942 | FKBP1A | Peptidyl-prolyl cis-trans isomerase FKBP1A | 1.26E-05 | 1.9 | ↓ | |
| Q8WY54 | PPM1E | Protein phosphatase 1E | 7.22E-06 | 1.8 | ↓ | |
| P13987 | CD59 | CD59 glycoprotein | 4.05E-05 | 1.8 | ↓ | |
| Q8NCB2 | CAMKV | CaM kinase-like vesicle-associated protein | 4.01E-06 | 1.6 | ||
| O75363 | BCAS1 | Breast carcinoma-amplified sequence 1 | 1.48E-05 | 1.5 | ↓ | ↓ |
| Q9H9H5 | MAP6D1 | MAP6 domain-containing protein 1 | 2.36E-05 | 1.5 | ↓ | |
| Early-onset AD - Plaque vs Non-plaque | ||||||
| Uniprot Accession ID | Gene name | Name | p-value | Fold Change | Change in DS | Change in LOAD |
| Increased | ||||||
| Aβ | 6.43E-10 | 21.6 | ↑ | ↑ | ||
| Q92743 | HTRA1 | Serine protease HTRA1 | 1.84E-08 | 6.0 | ↑ | ↑ |
| P02649 | APOE | Apolipoprotein E | 3.18E-10 | 5.9 | ↑ | ↑ |
| Q9BT88 | SYT11 | Synaptotagmin-11 | 3.45E-09 | 2.9 | ↑ | ↑ |
| P35052 | GPC1 | Glypican-1 | 1.51E-09 | 2.6 | ↑ | ↑ |
| O94985 | CLSTN1 | Calsyntenin-1 | 9.36E-10 | 2.5 | ↑ | ↑ |
| P0C0L4 | C4A | Complement C4-A | 5.49E-08 | 2.4 | ↑ | ↑ |
| P08670 | VIM | Vimentin | 7.4E-10 | 2.1 | ↑ | ↑ |
| P07339 | CTSD | Cathepsin D | 1.97E-09 | 2.0 | ↑ | ↑ |
| P26038 | MSN | Moesin | 5.16E-08 | 1.7 | ↑ | |
| Decreased | ||||||
| O94772 | LY6H | Lymphocyte antigen 6H | 2.55E-06 | 2.2 | ↓ | |
| Q9GZV7 | HAPLN2 | Hyaluronan and proteoglycan link protein 2 | 2.88E-08 | 1.9 | ↓ | ↓ |
| Q16653 | MOG | Myelin-oligodendrocyte glycoprotein | 5.84E-07 | 1.9 | ↓ | ↓ |
| P60201 | PLP1 | Myelin proteolipid protein | 1.18E-06 | 1.9 | ↓ | ↓ |
| Q7Z3B1 | NEGR1 | Neuronal growth regulator 1 | 5.09E-07 | 1.8 | ||
| P09543 | CNP | 2',3'-cyclic-nucleotide 3'-phosphodiesterase | 4.73E-09 | 1.7 | ||
| P02686 | MBP | Myelin basic protein | 1.97E-06 | 1.7 | ↓ | |
| P13637 | ATP1A3 | Sodium/potassium-transporting ATPase subunit alpha-3 | 1.95E-09 | 1.6 | ↓ | |
| P11169 | SLC2A3 | Solute carrier family 2, facilitated glucose transporter member 3 | 1.97E-06 | 1.5 | ↓ | |
| P41594 | GRM5 | Metabotropic glutamate receptor 5 | 1.45E-07 | 1.5 | ↓ | |
| Late-onset AD - Plaque vs Non-plaque | ||||||
| Uniprot Accession ID | Gene name | Name | p-value | Fold Change | Change in DS | Change in EOAD |
| Increased | ||||||
| Aβ | 2.55E-09 | 25.8 | ↑ | ↑ | ||
| Q92743 | HTRA1 | Serine protease HTRA1 | 9.94E-09 | 6.2 | ↑ | ↑ |
| P35052 | GPC1 | Glypican-1 | 1.39E-09 | 3.2 | ↑ | ↑ |
| Q9BT88 | SYT11 | Synaptotagmin-11 | 1.5E-09 | 2.9 | ↑ | ↑ |
| Q0VGL1 | LAMTOR4 | Ragulator complex protein LAMTOR4 | 1.19E-08 | 2.5 | ↑ | ↑ |
| P14136 | GFAP | Glial fibrillary acidic protein | 2.78E-09 | 2.4 | ↑ | |
| P08670 | VIM | Vimentin | 1.87E-10 | 2.4 | ↑ | ↑ |
| Q9ULB1 | NRXN1 | Neurexin-1 | 4.05E-08 | 2.4 | ↑ | ↑ |
| Q9UM22 | EPDR1 | Mammalian ependymin-related protein 1 | 4.23E-08 | 1.9 | ↑ | ↑ |
| P55084 | HADHB | Trifunctional enzyme subunit beta, mitochondrial | 4.83E-08 | 1.5 | ||
| Decreased | ||||||
| Q6UWR7 | ENPP6 | Glycerophosphocholine cholinephosphodiesterase ENPP6 | 1.23E-06 | 2.0 | ↓ | ↓ |
| O75363 | BCAS1 | Breast carcinoma-amplified sequence 1 | 9.47E-06 | 1.8 | ↓ | ↓ |
| Q9GZV7 | HAPLN2 | Hyaluronan and proteoglycan link protein 2 | 5.75E-06 | 1.7 | ↓ | ↓ |
| Q8IXJ6 | SIRT2 | NAD-dependent protein deacetylase sirtuin-2 | 7.07E-07 | 1.7 | ↓ | |
| P60201 | PLP1 | Myelin proteolipid protein | 3.38E-07 | 1.6 | ↓ | ↓ |
| Q16653 | MOG | Myelin-oligodendrocyte glycoprotein | 1.25E-06 | 1.6 | ↓ | ↓ |
| P20916 | MAG | Myelin-associated glycoprotein | 4.16E-06 | 1.6 | ↓ | |
| P02686 | MBP | Myelin basic protein | 7.42E-06 | 1.6 | ↓ | |
| P11169 | SLC2A3 | Solute carrier family 2, facilitated glucose transporter member 3 | 3.52E-05 | 1.5 | ↓ | |
| P13637 | ATP1A3 | Sodium/potassium-transporting ATPase subunit alpha-3 | 2.8E-07 | 1.5 | ↓ | |