Table II.
The top 50 down-regulated genes in damaged cartilage compared to undamaged cartilage
| Gene name | Gene symbol | Fold change | P-value |
|---|---|---|---|
| Laminin, beta 1 | LAMB1 | −15.3 | 0.0076 |
| SPARC-like 1 | SPARCL1 | −11.5 | 0.028 |
| Basic helix-loop-helix domain containing, class B, 5 | BHLHB5 | −9.8 | 0.011 |
| Glycoprotein (transmembrane) nmb | GPNMB | −9.5 | 0.0076 |
| Major histocompatibility complex, class II, DM beta | HLA-DMB | −8.7 | 0.015 |
| Major histocompatibility complex, class II, DR alpha | HLA-DRA | −8.3 | 0.021 |
| Collagen, type XIV, alpha 1 | COL14A1 | −8.3 | 0.0077 |
| Chemokine (C-X-C motif) ligand 12 | CXCL12 | −8.0 | 0.038 |
| Phosphodiesterase 1A | PDE1A | −7.9 | 0.0077 |
| NEL-like 1 | NELL1 | −7.7 | 0.021 |
| Secreted frizzled-related protein 4 | SFRP4 | 7.6 | 0.011 |
| Matrix metallopeptidase 2 | MMP2 | 7.2 | 0.0077 |
| Allograft inflammatory factor 1 | AIF1 | 7.2 | 0.021 |
| Metallopeptidase 13 | MMP13 | 7.1 | 0.021 |
| Collagen, type XIV, alpha 1 | COL14A1 | 7.0 | 0.015 |
| Proprotein convertase subtilisin/kexin type 1 | PCSK1 | 6.8 | 0.0077 |
| Secreted frizzled-related protein 1 | SFRP1 | 6.8 | 0.038 |
| Interferon-induced protein 44 | IFI44 | 6.5 | 0.0077 |
| Complement component 3 | C3 | 6.5 | 0.011 |
| Plasminogen activator | PLAU | 6.4 | 0.011 |
| Raftlin, lipid raft linker 1 | RFTN1 | 6.4 | 0.0077 |
| Matrix metallopeptidase 1 | MMP1 | 6.3 | 0.011 |
| Plexin domain containing 1 | PLXDC1 | 6.0 | 0.0077 |
| Serpin peptidase inhibitor, clade F | SERPINF1 | 5.8 | 0.0077 |
| Colony stimulating factor 1 receptor | C51FR | 5.8 | 0.0077 |
| Cadherin 11, type 2 | CDH11 | 5.51 | 0.0077 |
| Olfactomedin-like 3 | OLFML3 | 5.47 | 0.0077 |
| Fibrinogen-like 2 | FGL2 | 5.44 | 0.0152 |
| Matrix metallopeptidase 9 | MMP9 | 5.43 | 0.0077 |
| Major histocompatibility complex, class II, DR beta 4 | HLA-DRB4 | 5.33 | 0.0382 |
| G protein-coupled receptor 124 | GPR124 | 5.28 | 0.0077 |
| Hepatitis A virus cellular receptor 2 | HAVCR2 | 5.27 | 0.0077 |
| Twist homologue 1 | TWIST1 | 5.16 | 0.0077 |
| Insulin-like growth factor 1 | IGF1 | 5.09 | 0.0077 |
| Chemokine (C–C motif) ligand 2 | CCL2 | 5.03 | 0.0077 |
| Bone marrow stromal cell antigen 2 | BST2 | 5.03 | 0.0077 |
| Family with sequence similarity 20, member A | FAM20A | 5.01 | 0.0077 |
| Olfactomedin-like 3 | OLFML3 | 4.98 | 0.0077 |
| V-set and immunoglobulin domain containing 4 | VSIG4 | 4.97 | 0.0382 |
| Acyl-Coenzyme A oxidase 2, branched chain | ACOX2 | 4.95 | 0.0077 |
| Lymphoid enhancer-binding factor 1 | LEF1 | 4.94 | 0.0077 |
| Interleukin 13 receptor, alpha 2 | IL13RA2 | 4.89 | 0.0077 |
| Mannosidase, alpha, class 1C, member 1 | MAN1C1 | 4.78 | 0.0077 |
| Phospholipase C-like 2 | PLCL2 | 4.70 | 0.0077 |
| Leucine rich repeat containing 15 | LRRC15 | 4.67 | 0.0109 |
| Brain abundant, membrane attached signal protein 1 | BASP1 | 4.65 | 0.0109 |
| Q8SPE4_9PRIM | THC2632039 | 4.64 | 0.0209 |
| WNT1 inducible signalling pathway protein 2 | WISP2 | 4.55 | 0.0077 |
| Caspase 1 | CASP1 | 4.54 | 0.0077 |
| Acid phosphatase 5, tartrate resistant | ACP5 | 4.53 | 0.0209 |
| Chemokine (C–C motif) ligand 3 | CCL3 | 4.49 | 0.0077 |