Table 1:

Genes that were included in the rabbit gene chip

Proteolytic enzymes	a1-Antitrypsin,^11,15,17 calpain,²⁷ cathepsin B and D,^10,27,29 collagenase,^11,30 elastase,¹¹ MMP-1,²⁶ MMP-2,^11,18 MMP-7,²⁶ MMP-8,^26,30 MMP-9,^{5,11,16,19,20,27-30} MMP-12,³⁰ MMP-14,²⁶ MT1-MMP,^11,16 protease inhibitor,^15,27 SPARC (also known as osteonectin),¹⁰ TIMP-2,^11,19 TIMP-3¹⁰
Apoptosis of smooth muscle cells	Actinin,³⁰ heat shock protein,^26,27 c-Jun,¹² caveolin,²⁶ fas,²⁶ myosin heavy chain,³⁰ titin,²⁷ tumor suppressor 53,²⁶
Inflammatory cell recruitment	ACE,^11,14,15 albumin,²⁷ angiotensin type 1 receptor,¹⁴ β-galactosidase-binding lectin,¹⁰ endothelial differentiation factor,²⁶ HLA,^10,15 IgG heavy chain,¹⁰ Ig-γ light chain,¹⁰ NFAT,²⁷ vinculin,¹⁰ interferon γ,^26,27 interleukins,^26,27,29,30 MCP-1,²⁶ neutrophil-activating protein,²⁶ TNF^26-28,30
Coagulation cascade	Annexin III,²⁶ factor XIII,¹¹ haptoglobin, heme oxygenase,³⁰ plasminogen activator inhibitor-1,^11,26,30 PDGF-AA,^14,26,27,29 platelet membrane glycoprotein IIIA,²⁸ prothrombin, t-PA,¹⁶ thrombin receptor,^26,27 thrombomodulin,²⁶ thrombospondin 1,²⁶ transferrin,²⁷ u-PA,^11,27 vitronectin¹⁵
Extracellular matrix proteins	ADAM,²⁷ bFGF,¹⁴ bone cartilage proteoglycan,^26,29 BMP,^26,27 collagen I,^{10,11,15,21,38} collagen III,^{10,11,15,21-24} collagen IV,^{10,11,15,21,25} collagen V,^11,21 collagen VIII,¹¹ fibronectin,^10,11,38 fibromodulin,³⁰ FK506 binding protein 12,²⁷ insulin-like growth factor,^26-28 laminin,^11,15,28 lysyl oxidase,¹¹ tenascin,¹¹ TGF-β^11,27
Oxidative stress	Adenosine A3 receptor,²⁷ alcohol dehydrogenase,²⁶ apolipoprotein E,^15,27,29 atrial natriuretic peptide,²⁶ clusterin (apolipoprotein J),²⁶ cytochrome P450,²⁶ endothelin,²⁶ GST,²⁶ HIF-1, lipoxygenase,³⁰ SOD,²⁶ iNOS,^11,13,27,30 VEGF,¹¹ VEGF receptor¹¹
Cell signaling pathways	Acyl CoA binding protein,²⁹ c-myc,²⁶ calcineurin,²⁷ calmodulin,²⁷ CD86,²⁷ elongation factor 1-δ,¹⁰ deoxyribonuclease,²⁷ erythroblastic leukemia viral oncogene homolog 2,²⁷ frizzled,²⁷ glutamate receptor metabotropic,²⁷ heparin-binding epidermal growth factor-like growth factor, insulin responsive glucose transporter 4,²⁶ JNK MAPK,^12,26 neuregulin,²⁷ PLC,²⁷ PKC,^27,29 Serum- and glucocorticoid-inducible kinases ,^27,29 protein phosphatase-1, Ras associated protein 2,²⁷ RAL A GTP-binding protein,²⁹ ras,¹⁴ retinoic acid receptor-β,²⁶ rho/rac GEF,^27,28 transcription factor egr1,^26,27 tryptophan hydroxylase,²⁷ tyrosine receptor kinase²⁶

Note:—MMP indicates matrix metalloproteinase; MT1-MMP, membrane type metalloproteinase-1; SPARC, secreted protein acidic and rich in cysteine; TIMP, tissue inhibitor of metalloproteinase; ACE, angiotensin-converting enzyme; HLA, human leukocyte antigen; NFAT, nuclear factor of activated T cells; MCP, macrophage chemoattractant protein; TNF, tumor necrosis factor; ADAM, a disintegrin and metalloproteinase; PDGF, platelet-derived growth factor; u-PA, urokinase type plasminogen activator; bFGF, basic fibroblast growth factor; BMP, bone morphogenetic protein; TGF, transforming growth factor; SOD, superoxide dismutase; iNOS, inducible nitric-oxide synthase; VEGF, vascular endothelial growth factor; GST, glutathione S-transferase; HIF, hypoxia-inducible factor; JNK, c-Jun NH₂-terminal kinase; MAPK, mitogen activated protein kinase; PLC, phospholipase C; PKC, protein kinase C; GEF, guanine nucleotide exchange factor.
Articles demonstrating the relevance of each gene to vascular pathophysiology are cited. The functions of these genes are grouped into 7 pathways that are relevant to intracranial aneurysms.