| Low quality | Medium quality | High quality |  |  |  |  | |||
---|---|---|---|---|---|---|---|---|---|---|
Gene | Mean | SEM | Mean | SEM | Mean | SEM | Mean reads | RSQ | RC | P value |
Mitochondrial genes | ||||||||||
 mt-atp8 | 64,319 | 5561 | 90,104 | 10,130 | 108,669 | 14,165 | 92,682 | 0.0848 | 515.0 | 0.0717 |
 mt-co1 | 162,344 | 27,574 | 258,866 | 31,556 | 295,392 | 46,645 | 258,215 | 0.0255 | 899.0 | 0.2100 |
 mt-cytb | 91,006 | 18,224 | 149,496 | 16,174 | 167,933 | 24,250 | 147,946 | 0.0739 | 799.3 | 0.0426 |
 mt-nd4l | 6761 | 570 | 8704 | 954 | 9877 | 1308 | 8828 | 0.0663 | 41.9 | 0.1839 |
 mt-dlp | 12,706 | 1006 | 20,170 | 2665 | 25,906 | 4547 | 21,029 | 0.0178 | 67.5 | 0.2258 |
Nuclear genes | ||||||||||
 agfg1-like | 57.4 | 2.9 | 61.6 | 6.7 | 66.8 | 8.2 | 62.7 | 0.0036 | 0.0652 | 0.7895 |
 anxa2 | 48.2 | 5.1 | 67.8 | 7.0 | 78.0 | 9.5 | 68.5 | 0.0476 | 0.2650 | 0.1173 |
 apoc1 | 468.5 | 247.2 | 1450.8 | 329.0 | 492.0 | 90.9 | 1028.4 | 0.0152 | 5.8891 | 0.0433 |
 atg16l1 | 39.3 | 6.4 | 62.6 | 6.9 | 70.0 | 10.2 | 62.0 | 0.0408 | 0.2489 | 0.0947 |
 bmp10-like | 27.1 | 4.5 | 38.1 | 4.0 | 45.0 | 5.5 | 38.9 | 0.0547 | 0.1650 | ND |
 ctsz | 15,381.5 | 2115.8 | 10,910.5 | 935.6 | 13,587.7 | 1600.5 | 12,306.0 | 0.0067 | −15.5459 | 0.3711 |
 cycB | 11,733.3 | 2287.4 | 9881.1 | 444.9 | 11,933.6 | 795.4 | 10,754.0 | 0.0001 | −1.1530 | 0.9792 |
 dcaf11 | 80.6 | 8.1 | 140.1 | 11.9 | 153.4 | 16.1 | 136.8 | 0.1081 | 0.7006 | 0.0068 |
 dglucy | 11.7 | 2.3 | 13.5 | 0.6 | 11.9 | 1.0 | 12.8 | 0.0040 | −0.0081 | ND |
 erich3 | 14.0 | 2.0 | 13.5 | 0.6 | 12.0 | 1.0 | 13.1 | 0.0491 | −0.0274 | ND |
 fbxo5 | 325.8 | 55.0 | 446.7 | 44.0 | 563.5 | 70.0 | 468.0 | 0.0512 | 1.8846 | 0.0996 |
 galnt3 | 261.8 | 14.6 | 188.2 | 11.5 | 201.6 | 15.7 | 201.6 | 0.0671 | −0.5478 | 0.0321 |
 gsh-px | 175.4 | 21.8 | 266.6 | 24.7 | 333.2 | 49.4 | 276.0 | 0.0684 | 1.3579 | 0.0205 |
 gtf3a | 122.9 | 15.0 | 230.8 | 22.1 | 255.6 | 38.2 | 225.1 | 0.0961 | 1.3339 | 0.0041 |
 haus3 | 144.1 | 28.8 | 210.9 | 20.3 | 237.3 | 31.3 | 210.8 | 0.0371 | 0.7217 | 0.1045 |
 hbb | 2926.0 | 1803.7 | 4606.3 | 845.1 | 1833.6 | 647.8 | 3529.8 | 0.0003 | −2.4889 | 0.4535 |
 ifngr1 | 15.2 | 2.8 | 13.5 | 0.6 | 12.3 | 1.0 | 13.3 | 0.0708 | −0.0359 | ND |
 igf-1 | 19.7 | 2.9 | 24.0 | 2.3 | 24.7 | 3.7 | 23.7 | 0.0025 | 0.0211 | ND |
 igf-2 | 46.2 | 7.8 | 37.1 | 3.8 | 54.2 | 10.7 | 43.6 | 0.0025 | 0.0493 | ND |
 igf-3 | 15.5 | 3.1 | 24.9 | 2.8 | 31.3 | 4.8 | 25.7 | 0.0587 | 0.1321 | ND |
 igfr1b | 65.5 | 7.9 | 86.8 | 8.3 | 89.4 | 9.7 | 84.9 | 0.0209 | 0.1958 | 0.2058 |
 il17rd | 328.9 | 14.3 | 285.6 | 24.2 | 303.5 | 26.6 | 296.6 | 0.0062 | −0.3000 | 0.3318 |
 impa2 | 583.6 | 90.5 | 1790.5 | 180.4 | 2242.2 | 274.9 | 1780.8 | 0.2017 | 16.0697 | <.0001 |
 ing3 | 56.7 | 8.8 | 75.7 | 6.5 | 90.0 | 6.9 | 77.8 | 0.0977 | 0.3409 | 0.0099 |
 itga7 | 18.2 | 3.7 | 26.6 | 2.9 | 28.4 | 4.5 | 26.1 | 0.0125 | 0.0587 | ND |
 kmt5b | 59.2 | 3.4 | 61.0 | 6.0 | 59.3 | 4.9 | 60.2 | 0.0014 | 0.0333 | 0.9126 |
 krt18 | 41.9 | 22.6 | 95.5 | 14.7 | 58.2 | 11.6 | 77.1 | 0.0453 | 0.4992 | 0.0098 |
 krt8 | 53.6 | 25.4 | 73.0 | 14.0 | 42.7 | 6.4 | 61.1 | 0.0099 | 0.2094 | 0.2152 |
 lin7b | 160.8 | 32.6 | 343.1 | 29.4 | 499.4 | 58.2 | 369.1 | 0.2269 | 3.2817 | <.0001 |
 mettl3 | 11.7 | 2.3 | 13.5 | 0.6 | 11.9 | 1.0 | 12.8 | 0.0040 | −0.0081 | ND |
 mr-1 | 281.7 | 41.9 | 248.7 | 10.6 | 275.6 | 16.0 | 261.3 | 0.0001 | −0.0212 | 0.9661 |
 mrpl39-like | 54.8 | 9.4 | 179.4 | 20.6 | 255.5 | 40.2 | 187.6 | 0.1605 | 1.8167 | 0.0006 |
 myo1b | 115.4 | 12.2 | 78.8 | 6.5 | 73.8 | 6.4 | 81.8 | 0.1093 | −0.3735 | 0.0108 |
 nasp | 122.2 | 26.3 | 214.4 | 22.2 | 253.2 | 32.3 | 215.0 | 0.1182 | 1.4015 | 0.0014 |
 npm2 | 12.1 | 2.2 | 13.5 | 0.6 | 11.9 | 1.0 | 12.8 | 0.0085 | −0.0117 | ND |
 ntan1 | 326.0 | 31.4 | 309.2 | 22.0 | 368.3 | 29.6 | 329.7 | 0.0030 | 0.2094 | 0.9207 |
 pde4d | 58.3 | 8.0 | 79.9 | 9.5 | 89.1 | 12.5 | 80.1 | 0.0132 | 0.1851 | 0.3982 |
 pgk1 | 118.6 | 10.5 | 219.7 | 17.8 | 223.8 | 19.5 | 208.3 | 0.0992 | 0.9516 | 0.0023 |
 phb2 | 60.2 | 12.0 | 63.6 | 6.0 | 69.0 | 7.3 | 64.9 | 0.0109 | 0.1067 | 0.4136 |
 psmb9 | 32.5 | 19.5 | 53.4 | 8.3 | 40.7 | 7.5 | 46.8 | 0.0392 | 0.2712 | 0.0029 |
 ptgs2 | 505.0 | 113.3 | 424.6 | 28.0 | 518.9 | 44.5 | 464.1 | 0.0181 | 0.8142 | 0.4600 |
 pyc | 64.4 | 4.8 | 68.2 | 6.9 | 71.9 | 8.0 | 68.9 | 0.0018 | 0.0461 | 0.8653 |
 ran | 22.5 | 3.6 | 34.4 | 2.9 | 33.5 | 4.3 | 32.6 | 0.0552 | 0.1220 | ND |
 rpl22 | 230.7 | 39.3 | 448.7 | 52.3 | 484.2 | 74.6 | 432.5 | 0.0636 | 2.3447 | 0.0040 |
 rpl24 | 434.3 | 122.4 | 903.7 | 146.1 | 810.8 | 139.7 | 816.0 | 0.0132 | 2.6224 | 0.0473 |
 rpl30 | 563.4 | 180.3 | 1094.1 | 164.4 | 807.7 | 137.7 | 938.2 | 0.0136 | 2.9736 | 0.0538 |
 rplp1 | 35.0 | 4.2 | 45.4 | 4.7 | 56.3 | 6.8 | 47.5 | 0.0400 | 0.1685 | 0.1600 |
 rps9 | 142.3 | 27.2 | 264.5 | 37.4 | 214.9 | 24.7 | 233.7 | 0.0425 | 1.1405 | 0.0227 |
 s100a1 | 115.1 | 14.3 | 160.7 | 18.0 | 177.8 | 27.8 | 160.3 | 0.0218 | 0.4758 | 0.3086 |
 samm50 | 196.1 | 34.4 | 443.8 | 35.9 | 540.1 | 47.4 | 443.0 | 0.2166 | 3.2374 | <.0001 |
 sec14l2 | 48.4 | 5.9 | 74.1 | 8.1 | 87.4 | 10.4 | 75.0 | 0.0572 | 0.3331 | 0.0628 |
 senp7 | 35.5 | 5.8 | 57.4 | 5.9 | 77.6 | 13.9 | 61.0 | 0.1255 | 0.4848 | 0.0050 |
 ska3 | 84.0 | 8.6 | 167.6 | 15.3 | 233.7 | 28.4 | 177.8 | 0.1846 | 1.4286 | 0.0005 |
 slc7a6os | 169.4 | 35.4 | 285.5 | 25.8 | 364.0 | 42.2 | 295.5 | 0.1429 | 1.9438 | 0.0026 |
 smc6 | 110.0 | 8.7 | 86.6 | 6.6 | 91.7 | 7.3 | 91.1 | 0.0313 | −0.1914 | 0.1576 |
 tfip11 | 38.8 | 4.4 | 79.1 | 7.2 | 103.8 | 16.0 | 81.8 | 0.1226 | 0.5800 | 0.0007 |
 tob1 | 184.5 | 26.8 | 107.1 | 8.1 | 99.0 | 10.7 | 114.2 | 0.2126 | −0.8219 | 0.0004 |
 tubb | 1071.7 | 186.7 | 1835.7 | 119.1 | 2181.3 | 170.6 | 1848.2 | 0.2077 | 10.8335 | 0.0001 |
 uchl1 | 177.1 | 19.9 | 272.5 | 21.5 | 294.8 | 21.9 | 267.6 | 0.1417 | 1.3368 | 0.0033 |
 vasa | 479.6 | 35.4 | 377.6 | 28.8 | 377.0 | 27.2 | 390.2 | 0.0508 | −1.0327 | 0.0819 |