TABLE 1.
Inflammation and angiogenesis-related genes differentially expressed in the grafts of bone marrow–reconstituted Id1/Id3-deficient versus wild-type mice
| Inflammatory response genes | Accession no. | Whole graft | CD31+ cells | ISB4+ cells | Function |
|---|---|---|---|---|---|
| Adiponectin | NM_009605.3 | −26 | −1.2 | 1.12 | Anti-inflammatory, antiangiogenic |
| Leptin | NM_008493.3 | −5.9 | 1 | 1.1 | Proinflammatory/Th1 immune responses |
| Resistin-like molecule α | NM_020509.2 | 24 | −3.1 | 2.2 | Proinflammatory/M2 polarized immune responses |
| Interleukin 10 | NM_010548.1 | 1 | 3.4 | 1 | Anti-inflammatory, Th2 immune responses |
| TNF-α | NM_013693 | 1.4 | 2.7 | 1 | Th1 immune responses, proangiogenic |
| Interleukin 1β | NM_008361 | −7.1 | 1.6 | 1.6 | Th1 immune responses, proangiogenic |
| Interleukin 4 induced 1 | NM_010215.1 | 2.4 | −1.1 | 1.2 | Downregulation of T-cell responses |
| CCL1 | NM_008510.1 | −2.0 | 1.9 | 2.2 | Eosinophil recruitment/Th2/Tc2/Treg responses |
| CCL2 (MCP-1) | NM_011333.1 | −1.3 | 2.6 | 1.6 | Monocyte recruitment/proangiogenic |
| CCL5 (RANTES) | NM_013653.1 | −1.9 | 2.0 | 1.7 | Monocyte/T-cell/eosinophil recruitment |
| CCL7 | NM_013654 | −1.1 | 2.1 | −1.5 | Monocyte recruitment |
| CXCL9 | NM_008599 | −2.6 | 2.6 | −1.4 | Monocyte/T-cell recruitment |
| Acute response/repair response genes | |||||
| Complement factor D (adipsin) | NM_013459.1 | −100 | 1.0 | 1.0 | Complement activation |
| Chitinase 3-Like 4 | NM_145126.1 | 24 | −1.5 | 2.9 | Th2/M2 polarized immune responses |
| Small proline-rich protein 2A | NM_011468.2 | 7.6 | 1.0 | 1.1 | Protection from ischemic injury |
| Microsomal glutathione S-transferase 1 | NM_019946.3 | 5.7 | 1.0 | −1.3 | Protection from oxidant stress |
| Glutathione peroxidase 2 | NM_030677.1 | 5.2 | −1.1 | 2.9 | Protection from oxidant stress |
| Interleukin 1 receptor, type II | NM_010555.2 | 1.2 | 1.4 | 2.7 | Decoy receptor, downregulation of IL-1 signaling |
| Trefoil factor 1 | NM_009362.1 | 1.2 | −1.2 | 3.2 | Anti-inflammatory, antiapoptotic, proangiogenic |
| Trefoil factor 2 | NM_009363.2 | −2.4 | 4.7 | 1.2 | Anti-inflammatory, induction of cell proliferation/migration |
| CCL24 | NM_019577.2 | 8.6 | −2.6 | 1.8 | Eosinophil recruitment/Th2/Tc2 responses |
| SLAM member 7 | AK089525 | −1.2 | 2.5 | 1.1 | Immune regulation, Th2 responses, healing |
| Scavenger receptor class A, member 3 | NM_172604.1 | −1.2 | 1.2 | 4.4 | Pathogen recognition, apoptotic cell clearance |
| C-reactive protein (pentraxin-related) | NM_007768.2 | 1.2 | 1.1 | 3.1 | Pathogen recognition, apoptotic cell clearance |
| Chitinase 3-like 1 | NM_007695.1 | 1 | 3.0 | 1.5 | Downregulation of IL-1/TNF signaling |
| Serine peptidase inhibitor (clade G) | NM_009776 | −0.1.8 | 2.0 | 2.1 | Complement component 1 inhibition, suppression of leukocyte transmigration |
| Serine peptidase inhibitor (clade F) | NM_011340.2 | −1.3 | 1.5 | 2.4 | Anti-inflammatory, antiapoptotic, antiangiogenic |
| Secretory leukocyte peptidase inhibitor | NM_011414.1 | −1.2 | 1.4 | 5.7 | Antiproteases, anti-inflammatory |
| Cathelicidin | NM_009921.1 | 1 | 1 | 13 | Antimicrobial, immunomodulatory |
| Formyl peptide receptor like 1 | NM_008039.1 | −3.7 | 2.4 | 1.39 | Neutrophil/monocyte/T-cell recruitment, regulation of neutrophil lifespan, proangiogenic |
| Angiogenesis-related genes | |||||
| Calgranulin A | NM_013650.1 | −4.4 | 1.8 | 6.5 | Myeloid cell recruitment/ proangiogenic |
| Calgranulin B | NM_009114.1 | −5.4 | 1.5 | 7.1 | Myeloid cell recruitment/ proangiogenic |
| Coagulation factor X | NM_007972.2 | 1.2 | 1.0 | 4.0 | Coagulation factor/proangiogenic |
| Thy0.1.2 | NM_009382.2 | 1.4 | −1.2 | 4.2 | Matrix interaction/proangiogenic |
| Procollagen type VI | NM_009933.1 | 2.8 | 1.8 | 2.2 | Expressed in tumor endothelium, ligand of TEM8 |
| Serum amyloid 3 | NM_011315 | −1.1 | 3.4 | 3.3 | Induction of MMPs/proangiogenic |
| Kruppel like factor 5 | NM_009769.2 | −1.1 | 1.3 | 3.2 | Vascular remodeling |
| Interleukin-6 | NM_031168.1 | 1 | 1.2 | 3.2 | VEGF induction/proangiogenic |
| Spondin 2 | NM_133903.2 | 1.3 | 1.2 | 3.2 | Cell spreading |
| TIMP1 | NM_011593 | 1.3 | 1.5 | 3.0 | Regulation of MMP/ECM remodeling |
| MMP7 | NM_010810 | −2.2 | −1.6 | 2.7 | Endothelium proliferation/ migration |
| SPARC-related protein | NM_022316.1 | −1.2 | 1.1 | 2.6 | Negative regulation of cell adhesion, ECM degradation |
| Procollagen type IV α3 | NM_007734.1 | 1 | −1.3 | −2.0 | Blood vessels regression, antiangiogenic |
| Haptoglobin | NM_017370.1 | −6.5 | −1.5 | 2.7 | Antioxidant, proangiogenic |
| Fas ligand | NM_010177.2 | −1.1 | 1 | 3.1 | Proangiogenic, proapoptotic |
| Interleukin 18 receptor | NM_008365.1 | 1.2 | 1 | 2.8 | Proinflammatory/proangiogenic |
| CXCR3 | NM_009910.1 | 0.8 | 1.9 | 2.4 | Endothelium proliferation/ monocyte homing |
| Myeloperoxidase | NM_010824 | 1.6 | −1.1 | 22 | Neutrophil phagocytic functions |
| Cathepsin G | NM_007800.1 | 0 | −1.2 | 5 | MMP/receptor activation, proangiogenic |
| Elastase 2 | NM_015779 | 0 | 1 | 4.4 | MMP/receptor activation, proangiogenic |
| Arginase I | NM_007482 | −1.1 | −1.4 | 6.4 | Polyamine synthesis, cell proliferation |
| Delta like 1 homolog | NM_010052 | −1.5 | −4.3 | −1.5 | Notch 1/4 ligand |
| Secreted frizzled-related protein 2 | NM_009144.1 | −2.7 | −3.5 | −2.3 | Notch pathway component |
| F-Box/Wd40 ubiquitin component | NM_013908.1 | 15 | −1.2 | 2.8 | Negative regulation of Notch pathway |
Data are fold change. Genes exhibiting at least a twofold change between Id1/Id3-deficient and wild-type mice in the cell fractions of the indicated grafts are displayed. Values equal to 1 indicate no change of gene expression in Id1/Id3-deficient versus wild-type mice, whereas positive and negative values indicate upregulation and downregulation of specific genes, respectively. MMP, matrix metalloproteinase-7; SLAM, signaling lymphocytic activation molecule; SPARC, secreted protein, acidic, and rich in cysteine; TIMP, tissue inhibitor of metalloproteinase-1; TNF-α, tumor necrosis factor-α.