Table 3 Relative quantification (RQ) expression levels of total variants of the 24 genes-of-interest and of their specific transcript variants.
Gene/Variant | RQ levels, median (range) | Statistical significance, p | |||||||
|---|---|---|---|---|---|---|---|---|---|
CTTOTAL (n = 40) | CTRF− (n = 17) | CTRF+ (n = 23) | T2D (n = 48) | CTTOTAL vs. T2D | CTRF− vs. T2D | CTRF+ vs. T2D | CTRF− vs. CTRF+ | Linear trend following the CTRF− → CTRF+ → T2D order | |
Genes of interest (total variants) | |||||||||
ADAMTS9 | NE | NE | NE | NE | NA | NA | NA | NA | NA |
CAMK1D | 29.82 (9.467–61.03) | 30.24 (21.71–61.03) | 29.27 (9.467–49.79) | 33.66 (15.99–52.76) | 0.9142 | 0.8178 | 0.7229 | 0.4455 | 0.907 |
CAPN10 | 2.784 (0.968–5.987) | 2.785 (2.199–5.987) | 2.783 (0.968–5.721) | 2.699 (1.026–5.384) | 0.4390 | 0.1306 | 0.9116 | 0.2881 | 0.193 |
CDC123 | 4.859 (2.959–6.831) | 4.808 (3.196–6.019) | 4.937 (2.959–6.831) | 4.909 (3.069–11.59) | 0.1160 | 0.2612 | 0.1711 | 0.9086 | 0.135 |
CDK5 | 0.945 (0.512–2.473) | 0.919 (0.625–2.473) | 1.005 (0.512–1.998) | 1.151 (0.600–8.103) | 0.0056 | 0.0263 | 0.0264 | 0.9943 | 0.009 |
CDKAL1 | 4.311 (0.934–6.972) | 4.544 (2.545–6.440) | 4.214 (0.934–6.972) | 3.733 (0.652–8.709) | 0.3256 | 0.1688 | 0.7639 | 0.3135 | 0.238 |
CDKN2A | 0.655 (0.150–2.420) | 0.426 (0.200–2.220) | 0.920 (0.150–2.420) | 0.910 (0.320–4.030) | 0.0411 | 0.0032 | NS | 0.0385 | 0.010 |
CDKN2B | 0.596 (0.198–1.376) | 0.576 (0.379–1.376) | 0.615 (0.198–1.018) | 0.652 (0.155–1.819) | 0.2766 | 0.4521 | 0.3519 | 0.9112 | 0.230 |
FTO | 1.583 (0.641–2.559) | 1.432 (0.734–2.352) | 1.780 (0.641–2.559) | 1.512 (0.320–2.638) | 0.3015 | 0.9741 | 0.1235 | 0.2506 | 0.626 |
HHEX | 20.25 (5.30–37.23) | 20.00 (5.300–37.23) | 20.25 (5.30–33.41) | 23.50 (5.300–45.59) | 0.1802 | 0.3541 | 0.2340 | 0.8076 | 0.145 |
HNF1B | NE | NE | NE | NE | NA | NA | NA | NA | NA |
HNF4A | NE | NE | NE | NE | NA | NA | NA | NA | NA |
IGF2BP2 | 3.139 (0.443–12.57) | 3.670 (1.568–5.501) | 3.100 (0.443–12.57) | 3.671 (0.777–20.09) | 0.2438 | 0.4521 | 0.3046 | 0.8953 | 0.143 |
JAZF1 | 197.9 (12.46–688.8) | 214.9 (45.36–688.8) | 182.4 (12.46–498.3) | 173.9 (6.230–549.2) | 0.7540 | 0.8944 | 0.6639 | 0.6765 | 0.956 |
KCNJ11 | 0.536 (0.010–15.50) | 0.338 (0.010–15.50) | 0.568 (0.010–11.01) | 0.466 (0.010–43.85) | 0.6220 | 0.1509 | 0.6551 | 0.9618 | 0.605 |
KCNQ1 | 8.939 (2.083–15.48) | 9.363 (5.344–12.15) | 8.431 (2.083–15.48) | 7.760 (1.040–15.07) | 0.2640 | 0.1509 | 0.6551 | 0.3687 | 0.191 |
MTNR1B | NE | NE | NE | NE | NA | NA | NA | NA | NA |
NOTCH2 | 5.228 (0.710–9.706) | 5.303 (0.710–9.706) | 5.153 (0.710–9.069) | 4.859 (0.710–11.94) | 0.5411 | 0,5588 | 0,6850 | 0.9353 | 0.640 |
PPARG | 0.01533 (0.0012–0.0361) | 0.01540 (0.0012–0.0279) | 0.01520 (0.0012–0.0361) | 0.01475 (0.0012–0.0738) | 0.8397 | 0.8562 | 0.8860 | 0.9622 | 0.856 |
SLC30A8 | 5.094 (0.0–695.4) | 20.48 (1.001–695.4) | 3.075 (0.0–364.0) | 6.099 (0.0–3139) | 0.3922 | 0.5728 | 0.1908 | 0.1574 | 0.796 |
TCF7L2 | 3.803 (0.911–8.146) | 3.678 (1.942–8.146) | 3.827 (0.911–7.488) | 3.782 (1.673–10.13) | 0.6388 | 0.6860 | 0.7138 | 0.7475 | 0.507 |
THADA | 1.867 (0.592–4.052) | 1.542 (0.592–3.985) | 1.951 (0.817–4.052) | 1.788 (0.362–3.962) | 0.8096 | 0.6147 | 0.8160 | 0.7117 | 0.602 |
TSPAN8 | 0.1590 (0.0247–1.132) | 0.1071 (0.0247–1.132) | 0.1894 (0.0741–0.832) | 0.2340 (0.0398–2.124) | 0.0055 | 0.0007 | 0.1889 | 0.0057 | 0.001 |
WFS1 | 0.2015 (0.0362–0.4887) | 0.2193 (0.0362–0.4887) | 0.1861 (0.0842–0.3805) | 0.2235 (0.0388–0.4155) | 0.2984 | 0.8687 | 0.1603 | 0.3743 | 0.465 |
Transcript variants of interest | |||||||||
CAPN10 tv3 | 3.924 (0.313–12.30) | 5.098 (1.016–12.30) | 3.405 (0.313–8.056) | 2.208 (0.313–12.43) | 0.0004 | <0.0001 | 0.0521 | 0.0655 | <0.0005 |
CDK5 tv1 | 0.745 (0.285–2.266) | 0.754 (0.509–2.266) | 0.735 (0.285–1.441) | 0.943 (0.494–8.233) | 0.0034 | 0.0206 | 0.0177 | 0.8196 | 0.006 |
CDK5 tv2 | 1.117 (0.453–2.938) | 1.190 (0.788–2.938) | 1.071 (0.453–2.139) | 1.308 (0.631–3.843) | 0.0367 | 0.3732 | 0.0196 | 0.2098 | 0.167 |
CDKN2A tv1 | NE | NE | NE | NE | NA | NA | NA | NA | NA |
CDKN2A tv3 | 0.0300 (0.0062–2.083) | 0.0145 (0.0062–2.083) | 0.0390 (0.0094–0.820) | 0.0722 (0.0062–3.481) | 0.0035 | 0.0022 | 0.0770 | 0.0579 | 0.002 |
CDKN2A tv4 | 0.669 (0.321–2.600) | 0.570 (0.321–2.600) | 0.850 (0.360–1.489) | 0.928 (0.292–3.300) | 0.0125 | 0.0002 | 0.4922 | 0.0151 | 0.001 |
CDKN2A tv5 | NE | NE | NE | NE | NA | NA | NA | NA | NA |
IGF2BP2 tv4 | NE | NE | NE | NE | NA | NA | NA | NA | NA |
IGF2BP2 tv4, 5, 6 & 7 | 0.0106 (0.0106–0.4114) | 0.0106 (0.0106–0.3017) | 0.0106 (0.0106–0.4114) | 0.0106 (0.0106–0.9255) | 0.8008 | 0.8537 | 0.5898 | 0.6346 | 0.970 |
IGF2BP2 tv7 | 3.903 (0.5160–12.14) | 3.670 (1.4040–12.14) | 3.989 (0.5160–11.91) | 4.485 (1.032–14.14) | 0.2167 | 0.1665 | 0.2076 | 0.5629 | 0.050 |
KCNQ1 tv1 | 9.408 (2.445–18.34) | 10.520 (7.504–18.34) | 8.951 (2.445–16.34) | 8.456 (2.880–16.93) | 0.0761 | 0.0143 | 0.5530 | 0.0448 | 0.013 |
TCF7L2 tv4 & 9 | 1.478 (0.842–3.843) | 1.773 (0.842–3.843) | 1.476 (1.087–3.190) | 1.392 (0.396–4.554) | 0.4641 | 0.6832 | 0.5051 | 0.8466 | 0.567 |
TCF7L2 tv12 | 3.036 (0.247–7.023) | 3.315 (1.434–6.988) | 2.808 (0.247–7.023) | 3.490 (0.494–7.614) | 0.7903 | 0.3856 | 0.2659 | 0.1558 | 0.945 |
THADA tv1 & 3 | 2.513 (1.256–5.316) | 2.736 (1.559–4.599) | 2.126 (1.256–5.316) | 2.326 (1.008–7.321) | 0.5999 | 0.1509 | 0.6596 | 0.1302 | 0.382 |
THADA tv4 | 2.319 (0.916–6.221) | 2.241 (1.519–6.221) | 2.397 (0.916–4.080) | 2.464 (0.912–8.510) | 0.4336 | 0.9741 | 0.2606 | 0.4618 | 0.549 |
THADA tv5 | 2.582 (0.596–35.83) | 2.933 (1.128–35.83) | 2.304 (0.596–16.01) | 3.452 (0.718–120.7) | 0.0479 | 0.0237 | 0.0341 | 0.3544 | 0.129 |
