Table I.
Genes upregulated in hACs (with P < 0.01) and murine neonatal costal chondrocytes upon deletion of miR-140
| GENE |
miR-140 KD in osteoarthritic, human articular chondrocytes |
P value | P value adjusted | Costal RNA from 7-day-old-miR-140 KO mice |
P value | P value adjusted | Presence of miR-140 seed sequence |
|---|---|---|---|---|---|---|---|
| Mean Fold change normalised to non-targeted control (lower, upper 95% CI) | Mean Fold change normalised to wild type (lower, upper 95% CI) | ||||||
| AGRN | 4.752 (2.978, 6.525) | 0.0019 | 0.0830 | 1.641 (1.434, 1.848) | 4.75E-06 | 9.15E-05 | – |
| BMP2 | 5.333 (2.609, 8.057) | 0.0008 | 0.0349 | 1.170 (0.748, 1.593) | 0.9729 | 0.9880 | 140–5p |
| CYP26B1 | 2.867 (1.824, 3.910) | 0.0089 | 0.3750 | 3.162 (1.985, 4.338) | 1.71E-19 | 4.49E-17 | – |
| FGF2 | 2.657 (0.755, 4.558) | 0.0038 | 0.1632 | 1.523 (1.175, 1.871) | 0.0033 | 0.0219 | 140–5p |
| IFT88 | 1.821 (1.110, 2.531) | 0.0023 | 0.1005 | 0.675 (0.495, 0.856) | 0.0002 | 0.0024 | – |
| RARG | 2.427 (1.845, 3.009) | 0.0009 | 0.0405 | 0.845 (0.629, 1.062) | 0.29772 | 0.5394 | – |
| SEPT2 | 1.95 (1.318, 2.582) | 0.0006 | 0.0268 | 1.836 (1.681, 1.990) | 1.03E-11 | 7.81E-10 | 140–5p |
| TTBK2 | 1.926 (1.138, 2.715) | 0.0029 | 0.1244 | 1.098 (1.004, 1.192) | 0.7826 | 0.8992 | – |
Comparison of human chondrocytes after miR-140 gene editing with genes regulated in costal chondrocytes from 7-day-old miR-140 KO mice compared with wild type animals (determined by RNA-sequencing). Statistical testing of human data was by Student's t-test (two-tailed) (P value) with multiple comparison (n = 47) testing (P value adjusted). For the RNAseq data, we used deseq2 which uses a Wald t-test then a modified Benjamini Hochberg to reduce false positives. Presence of miR-140 seed sequences indicated.