Table 4 Group B Normalized reads
| Â | Low quality | Medium quality | High quality | Â | Â | Â | Â | |||
|---|---|---|---|---|---|---|---|---|---|---|
Gene | Mean | SEM | Mean | SEM | Mean | SEM | Mean reads | RSQ | RC | P value |
Mitochondrial genes | ||||||||||
 mt-atp8 | 54,603 | 4919 | 45,585 | 3878 | 68,028 | 9875 | 53,384 | 0.0038 | 46.3 | 0.9747 |
 mt-co1 | 153,864 | 16,034 | 169,723 | 16,529 | 198,231 | 23,624 | 167,338 | 0.0414 | 494.9 | 0.0907 |
 mt-cytb | 72,203 | 6855 | 75,366 | 8870 | 104,405 | 12,031 | 78,783 | 0.0678 | 313.2 | 0.1034 |
 mt-nd4l | 3332 | 275 | 3687 | 340 | 5505 | 618 | 3830 | 0.0971 | 16.5 | 0.0801 |
 mt-dlp | 20,327 | 1675 | 14,663 | 1289 | 13,641 | 1439 | 17,041 | 0.1214 | −81.3 | 0.0171 |
Nuclear genes | ||||||||||
 agfg1-like | 49.7 | 5.3 | 39.8 | 4.1 | 57.5 | 6.5 | 47.2 | 0.0022 | 0.0344 | 0.9480 |
 anxa2 | 44.2 | 5.0 | 39.0 | 4.1 | 52.4 | 6.6 | 43.6 | 0.0078 | 0.0610 | 0.5579 |
 apoc1 | 1478.3 | 206.3 | 2151.0 | 430.9 | 1207.1 | 229.3 | 1691.0 | 0.0043 | 3.0190 | 0.8342 |
 atg16l1 | 47.8 | 4.5 | 37.6 | 4.0 | 46.4 | 6.4 | 43.6 | 0.0081 | −0.0587 | 0.3115 |
 bmp10-like | 25.4 | 2.8 | 22.8 | 2.8 | 32.0 | 5.6 | 25.5 | 0.0193 | 0.0618 | ND |
 ctsz | 12,729.3 | 761.5 | 9577.1 | 709.3 | 7959.5 | 504.0 | 10,726.0 | 0.2075 | −53.6418 | 0.0003 |
 cycB | 11,626.3 | 654.0 | 9526.4 | 636.5 | 9595.5 | 637.3 | 10,482.9 | 0.0945 | −29.7049 | 0.0186 |
 dcaf11 | 131.7 | 8.9 | 150.7 | 9.4 | 174.1 | 9.4 | 146.0 | 0.0942 | 0.4223 | 0.0158 |
 dglucy | 17.0 | 3.4 | 13.1 | 1.8 | 12.8 | 1.4 | 14.8 | 0.0159 | −0.0500 | ND |
 erich3 | 11.5 | 1.0 | 12.1 | 0.9 | 12.8 | 1.4 | 12.0 | 0.0123 | 0.0160 | ND |
 fbxo5 | 647.2 | 61.3 | 660.8 | 51.1 | 683.6 | 65.6 | 658.5 | 0.0101 | 0.8246 | 0.3339 |
 galnt3 | 192.2 | 13.7 | 170.9 | 16.3 | 196.9 | 14.3 | 184.8 | 0.0013 | −0.0760 | 0.6643 |
 gsh-px | 441.4 | 41.5 | 354.8 | 30.5 | 353.8 | 57.5 | 393.6 | 0.0262 | −0.9181 | 0.2192 |
 gtf3a | 205.5 | 14.6 | 200.0 | 15.4 | 235.9 | 12.7 | 208.4 | 0.0227 | 0.3200 | 0.1589 |
 haus3 | 157.0 | 13.1 | 153.5 | 14.2 | 185.6 | 14.9 | 160.4 | 0.0188 | 0.2699 | 0.2781 |
 hbb | 3189.6 | 931.9 | 6115.2 | 1972.1 | 1474.8 | 705.7 | 4025.3 | 0.0002 | −3.2748 | 0.7471 |
 ifngr1 | 11.7 | 1.0 | 12.0 | 1.0 | 12.8 | 1.4 | 12.0 | 0.0038 | 0.0091 | ND |
 igf-1 | 18.2 | 1.9 | 17.4 | 1.8 | 19.9 | 2.7 | 18.2 | 0.0010 | 0.0086 | ND |
 igf-2 | 37.7 | 4.2 | 25.0 | 3.1 | 35.4 | 9.3 | 32.5 | 0.0126 | −0.0727 | 0.2445 |
 igf-3 | 17.8 | 1.9 | 17.0 | 1.6 | 17.9 | 2.6 | 17.5 | 0.0013 | 0.0096 | ND |
 igfr1b | 60.9 | 5.4 | 56.5 | 4.7 | 75.1 | 8.4 | 61.6 | 0.0173 | 0.1043 | 0.5230 |
 il17rd | 212.9 | 15.8 | 193.2 | 15.0 | 254.3 | 28.3 | 212.2 | 0.0147 | 0.2961 | 0.5738 |
 impa2 | 1384.4 | 100.3 | 1668.8 | 118.1 | 1894.1 | 123.3 | 1578.4 | 0.1558 | 6.5165 | 0.0009 |
 ing3 | 67.0 | 4.6 | 71.1 | 5.7 | 81.3 | 7.4 | 71.0 | 0.0324 | 0.1365 | 0.2700 |
 itga7 | 15.3 | 1.2 | 17.2 | 1.8 | 20.9 | 2.8 | 17.0 | 0.0503 | 0.0525 | ND |
 kmt5b | 45.8 | 4.1 | 43.1 | 3.4 | 60.8 | 8.3 | 47.2 | 0.0315 | 0.1125 | 0.2804 |
 krt18 | 173.7 | 23.1 | 181.3 | 21.5 | 86.4 | 14.6 | 162.0 | 0.0400 | −0.6560 | 0.2239 |
 krt8 | 137.8 | 16.7 | 150.6 | 15.8 | 87.1 | 11.6 | 134.2 | 0.0337 | −0.4345 | 0.2211 |
 lin7b | 314.3 | 27.9 | 294.8 | 23.6 | 276.1 | 25.7 | 300.5 | 0.0039 | −0.2336 | 0.8913 |
 mettl3 | 11.5 | 1.0 | 11.7 | 1.0 | 12.8 | 1.4 | 11.8 | 0.0046 | 0.0102 | ND |
 mr-1 | 242.6 | 11.9 | 196.9 | 13.0 | 201.3 | 17.3 | 218.2 | 0.0699 | −0.5097 | 0.0435 |
 mrpl39-like | 210.2 | 24.4 | 273.6 | 27.8 | 263.3 | 16.6 | 243.4 | 0.0759 | 1.0183 | 0.0092 |
 myo1b | 48.5 | 4.3 | 43.9 | 3.1 | 54.5 | 7.1 | 47.7 | 0.0028 | 0.0317 | 0.9864 |
 nasp | 151.8 | 10.7 | 176.1 | 11.1 | 205.8 | 14.0 | 170.1 | 0.1473 | 0.6445 | 0.0030 |
 npm2 | 12.2 | 1.0 | 11.7 | 1.0 | 12.8 | 1.4 | 12.1 | 0.0001 | 0.0015 | ND |
 ntan1 | 231.6 | 14.9 | 186.0 | 15.7 | 206.3 | 13.3 | 209.9 | 0.0305 | −0.3887 | 0.1795 |
 pde4d | 52.3 | 4.6 | 49.6 | 6.0 | 62.5 | 8.1 | 53.0 | 0.0091 | 0.0750 | 0.7286 |
 pgk1 | 176.9 | 9.2 | 179.8 | 7.3 | 206.0 | 14.0 | 182.9 | 0.0353 | 0.2448 | 0.2972 |
 phb2 | 45.0 | 2.9 | 49.9 | 3.7 | 60.7 | 8.1 | 49.5 | 0.0927 | 0.1713 | 0.0600 |
 psmb9 | 52.9 | 7.5 | 54.8 | 6.6 | 32.1 | 3.7 | 50.1 | 0.0182 | −0.1367 | 0.7264 |
 ptgs2 | 413.4 | 39.1 | 328.0 | 42.5 | 523.1 | 88.8 | 398.9 | 0.0135 | 0.7859 | 0.5895 |
 pyc | 44.0 | 4.4 | 43.8 | 4.1 | 54.5 | 5.7 | 45.7 | 0.0185 | 0.0862 | 0.3774 |
 ran | 29.2 | 3.4 | 27.5 | 3.4 | 23.8 | 2.8 | 27.6 | 0.0033 | −0.0276 | ND |
 rpl22 | 664.3 | 66.2 | 590.6 | 52.8 | 471.7 | 38.7 | 604.0 | 0.0379 | −1.6919 | 0.2635 |
 rpl24 | 1029.6 | 132.7 | 900.4 | 93.3 | 478.0 | 55.6 | 888.1 | 0.0750 | −4.7192 | 0.0655 |
 rpl30 | 1473.7 | 147.7 | 1374.3 | 124.6 | 779.6 | 82.3 | 1319.9 | 0.0819 | −5.8789 | 0.0342 |
 rplp1 | 33.6 | 2.7 | 30.9 | 2.4 | 35.9 | 3.3 | 32.9 | 0.0059 | 0.0287 | ND |
 rps9 | 264.9 | 18.9 | 278.0 | 20.2 | 179.8 | 10.6 | 255.7 | 0.0449 | −0.6094 | 0.1525 |
 s100a1 | 110.2 | 10.0 | 99.2 | 9.8 | 120.2 | 14.3 | 107.7 | 0.0003 | 0.0243 | 0.9801 |
 samm50 | 333.4 | 21.0 | 322.3 | 21.8 | 409.3 | 18.5 | 341.8 | 0.0365 | 0.5987 | 0.2896 |
 sec14l2 | 52.5 | 4.3 | 43.0 | 5.0 | 61.7 | 6.8 | 50.4 | 0.0052 | 0.0513 | 0.9647 |
 senp7 | 43.2 | 3.8 | 54.5 | 4.1 | 59.3 | 4.8 | 50.2 | 0.1060 | 0.1956 | 0.0036 |
 ska3 | 193.4 | 14.7 | 176.4 | 12.0 | 206.9 | 11.1 | 189.1 | 0.0033 | 0.1109 | 0.4935 |
 slc7a6os | 272.4 | 15.0 | 293.4 | 18.5 | 283.3 | 9.9 | 282.3 | 0.0087 | 0.2153 | 0.3751 |
 smc6 | 80.3 | 5.2 | 63.8 | 4.5 | 77.0 | 7.2 | 73.4 | 0.0282 | −0.1270 | 0.1358 |
 tfip11 | 55.0 | 5.0 | 63.8 | 4.6 | 65.4 | 5.3 | 60.1 | 0.0575 | 0.1697 | 0.0055 |
 tob1 | 96.7 | 9.0 | 79.7 | 5.8 | 75.5 | 8.7 | 86.7 | 0.0454 | −0.2446 | 0.1939 |
 tubb | 2223.9 | 101.4 | 2133.1 | 122.1 | 2264.9 | 130.4 | 2195.9 | 0.0001 | −0.1152 | 0.9580 |
 uchl1 | 199.8 | 10.4 | 220.1 | 15.8 | 292.2 | 13.1 | 223.0 | 0.1781 | 0.8769 | 0.0063 |
 vasa | 241.6 | 15.5 | 216.4 | 13.1 | 291.0 | 43.1 | 240.2 | 0.0068 | 0.2202 | 0.9890 |