Table 2. Selected genes identified as differentially expressed (DF vs. UF) in the context of a putative role in atherosclerosis.
| Up-regulated
|
Down-regulated
|
||||||
|---|---|---|---|---|---|---|---|
| Gene | GenBank ID | Ratio | Putative effect* | Gene | GenBank ID | Ratio | Putative effect* |
| Inflammatory/immune response | |||||||
| IL-1A | X02851 | 2.01 | + | IL-10 | M57627 | 0.67 | + |
| IL-1R1 | M27492 | 1.46 | + | IKBKAP | AF153419 | 0.77 | + |
| IL-6 | X04430 | 1.68 | + | CEZANNE | AJ293573 | 0.66 | + |
| MCP-1 | M37719 | 1.57 | + | IL-8 | M28130 | 0.62 | – |
| RAGE | AB036432 | 4.02 | + | CXCR4 | AF005058 | 0.29 | – |
| IL-8RB | M99412 | 1.65 | + | FOS | BC004490 | 0.43 | – |
| NFKB1 | M58603 | 1.34 | + | PAFR | D10202 | 0.66 | – |
| NFKB2 | S76638 | 1.35 | + | C3 | J04763 | 0.27 | – |
| NFKBIA | BC004983 | 2.76 | + | HLADRB4 | M19556 | 0.55 | – |
| EPCR | L35545 | 1.90 | – | TRAF6 | H12612 | 0.62 | – |
| PTGS2 | D28235 | 1.55 | – | IGFBP1 | R81994 | 0.66 | – |
| IL-14 | L15344 | 0.67 | ? | ||||
| Oxidative mechanisms | |||||||
| GPX3 | D00632 | 5.64 | – | TXNIP | S73591 | 0.44 | – |
| SOD3 | U10116 | 1.39 | – | COX6B | BC001015 | 0.61 | – |
| NQO1 | BC000474 | 1.50 | – | COX7A2 | AY007643 | 0.74 | – |
| POR | AF258341 | 1.36 | – | NDUFC1 | AK023115 | 0.69 | – |
| HMOX1 | X06985 | 1.66 | – | NDUFS4 | AF020351 | 0.64 | – |
| GSTT1 | AB057594 | 1.55 | – | NDUFS6 | AF044959 | 0.56 | – |
| MGST2 | U77604 | 2.83 | – | NDUFS3 | AL135819 | 0.52 | – |
| NDUFA7 | Y16007 | 1.40 | + | NDUFA3 | AF044955 | 0.42 | – |
| NDUFB7 | AF112200 | 1.35 | + | NDUFV2 | M22538 | 0.75 | – |
| NDUFB10 | AF088991 | 1.35 | + | NDUFA6 | BC002772 | 0.76 | – |
| NDUFS8 | U65579 | 0.70 | – | ||||
| CYBB | X04011 | 0.46 | – | ||||
| NOS3 | M93718 | 0.69 | + | ||||
| SOD1 | K00065 | 0.77 | + | ||||
| Cell adhesion† | |||||||
| VWF | X04385 | 5.04 | + | CTNND1 | AF062343 | 0.59 | ? |
| CD44 | AJ251595 | 1.47 | + | CDH1 | Z13009 | 0.50 | ? |
| CDH3 | X63629 | 1.43 | – | CDH13 | L34058 | 0.65 | ? |
| FN1 | AJ276395 | 2.51 | ? | ITGA6 | X53586 | 0.43 | ? |
| ITGB4 | X51841 | 1.43 | ? | ITGA5 | BC008786 | 0.69 | ? |
| MO1A | J03270 | 1.34 | ? | JUP | Z68228 | 0.19 | ? |
IL-1A, IL-1α; IL-1R1, IL-1 receptor 1; IL-6, IL-6 (interferon β2); MCP-1, monocyte chemotactic protein 1; RAGE, advanced glycosylation end product-specific receptor; IL-8RB (CXCR2), IL-8 receptor β; NFKB1, nuclear factor of κ light polypeptide gene enhancer in B cells 1 (p105); NFKB2, nuclear factor of κ light polypeptide gene enhancer in B cells 2 (p49/p100); NFKBIA, NF-κB inhibitor α; EPCR, endothelial protein C receptor; PTGS2, prostaglandin endoperoxide synthase-2 (COX-2); IKBKAP, inhibitor of κ light polypeptide gene enhancer in B-cells, kinase complex-associated protein; CEZANNE, cellular zinc finger anti-NF-κB; CXCR4, chemokine (C-X-C motif) receptor 4; FOS, v-fos FBJ murine osteosarcoma viral oncogene; PAFR, platelet-activating factor receptor; C3, complement component C3; HLADRB4, MHC class II HLA-DRw53-beta (DR4,w4); TRAF6, tumor necrosis factor receptor-associated factor 6; IGFBP1, insulin-like growth factor binding protein 1; GPX3, glutathione peroxidase 3; SOD3, superoxide dismutase 3; NQO1, NADH quinone oxidoreductase; POR, cytochrome P450 oxidoreductase; HMOX1, heme oxygenase (decycling) 1; GSTT1, GST θ1; MGST2, microsomal GST 2; NDUFA7, NADH ubiquinone oxidoreductase; NDUFB7, NADH dehydrogenase (ubiquinone) component B7; NDUFB10, NADH dehydrogenase (ubiquinone) component B10; TXNIP, thioredoxin interacting protein (VDUP1); COX6B, cytochrome c oxidase subunit VIb; COX7A2, subunit VIIa; NDUFC1, NADH dehydrogenase (ubiquinone) component C1; NDUFS4, component S4; NDUFS6, component S6; NDUFS3, component S3; NDUFA3, component A3; NDUFV2, component V2; NDUFA6, component A6; NDUFS8, component S8; CYBB, cytochrome b-245 beta (NADPH oxidase component p91 phox); NOS3, endothelial nitric oxide synthase; SOD1, superoxide dismutase 1; VWF, von Willebrand factor; CD44, cell adhesion molecule (CD44); CDH3, cadherin 3 (P-cadherin); FN1, fibronectin 1; ITGB4, integrin β4; MO1A, leukocyte adhesion glycoprotein Mo1α; CTNND1, catenin δ1; CDH1, cadherin 1 (E-cadherin); CDH13, cadherin 13 (H-cadherin); ITGA6, integrin α6; ITGA5, integrin α5 (fibronectin receptor); JUP, junction plakoglobin.
+, pro-atherosclerotic; –, anti-atherosclerotic; ?, unknown.
References to the putative effect provided as Supporting References to Table 2, which is published as supporting information on the PNAS web site
Vascular cell adhesion molecule 1 (VCAM-1), intercellular adhesion molecule 1, P-selectin, E-selectin were not significantly different