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Table 2 Genes found to be differentially expressed in the livers of high and low RFI animals

From: Global liver gene expression differences in Nelore steers with divergent residual feed intake phenotypes

Gene ID Locus Mean HRFI, efficient Mean LRFI, inefficient log 2 (fold change)* p-value q-value
ABCA3 25:1796503-1838160 14.089 10.041 −0.489 0.00010 0.0146
ACE2 X:135148112-135200083 4.048 7.033 0.797 0.00010 0.0146
ACTA2 26:10662362-10679648 43.210 63.910 0.565 0.00010 0.0146
AGXT2L1 6:17710759-17730624 12.884 20.459 0.667 0.00005 0.0086
AKR7A3 2:133971793-133988579 9.568 14.340 0.584 0.00010 0.0146
ARHGEF38 6:20756178-20911532 2.807 1.393 −1.011 0.00005 0.0086
ATP2A2 17:56458580-56516270 30.796 21.928 −0.490 0.00040 0.0391
C1QA 2:130792854-130795743 332.759 475.615 0.515 0.00015 0.0192
C1QC 2:130783985-130788357 288.826 403.344 0.482 0.00035 0.0354
C28H10orf57 28:35425156-35433927 69.737 99.972 0.520 0.00005 0.0086
CA3 14:79406490-79446489 98.122 150.958 0.622 0.00005 0.0086
CACNA2D1 4:38338971-38860701 1.265 0.704 −0.845 0.00010 0.0146
CFD 7:45029927-45032847 132.823 179.814 0.437 0.00035 0.0354
CHPF2 4:114609573-114641250 4.314 10.102 1.228 0.00005 0.0086
CHRNE 19:27117262-27123208 4.823 7.803 0.694 0.00030 0.0311
CKB 21:69809411-69812615 15.935 24.904 0.644 0.00005 0.0086
COL1A1 19:37088245-37106162 5.848 8.630 0.561 0.00015 0.0192
COL1A2 4:11624469-11661163 8.463 11.675 0.464 0.00050 0.0467
CR2 16:5253369-5329698 10.291 15.184 0.561 0.00005 0.0086
CRELD2 5:120933368-120940337 48.548 34.638 −0.487 0.00030 0.0311
CST3 13:42562165-42566091 108.479 149.461 0.462 0.00030 0.0311
CTGF 9:70873215-70876451 2.906 4.964 0.772 0.00030 0.0311
CYBB X:111078497-111112510 3.318 5.155 0.636 0.00025 0.0277
CYP2B6 18:50564357-50581409 3.226 6.360 0.979 0.00005 0.0086
CYP4B1 3:99937027-99957426 4.738 2.662 −0.832 0.00045 0.0434
CYR61 3:58678776-58681686 11.769 19.795 0.750 0.00010 0.0146
EGR1 7:51438709-51442512 2.865 4.958 0.791 0.00005 0.0086
EPPK1 14:2132703-2147067 3.731 2.606 −0.518 0.00010 0.0146
ERO1LB 28:8948959-9026767 52.787 33.039 −0.676 0.00005 0.0086
FABP1 11:47786225-47793339 1306.810 2103.300 0.687 0.00005 0.0086
FADS2 29:41045093-41083225 23.288 43.606 0.905 0.00005 0.0086
FAM115C 4:107802455-107821622 1.889 0.854 −1.145 0.00005 0.0086
FAM174B 21:14689962-14731037 1.176 3.262 1.472 0.00005 0.0086
FAM47E 6:92915864-92950560 2.131 0.979 −1.122 0.00030 0.0311
FBXL14 5:108602493-108613689 8.953 6.000 −0.578 0.00005 0.0086
FCGR3A 3:7996469-8005232 28.713 43.892 0.612 0.00005 0.0086
FKBP5 23:9521253-9643463 22.981 12.855 −0.838 0.00005 0.0086
FOLR2 15:52601882-52605587 41.287 56.769 0.459 0.00030 0.0311
FOS 10:86883738-86887170 3.668 5.806 0.663 0.00050 0.0467
GALE 2:129707102-129711871 29.431 20.571 −0.517 0.00005 0.0086
GCSH 18:7793105-7805806 48.733 65.951 0.437 0.00050 0.0467
GLCE 10:16009392-16119077 27.221 17.796 −0.613 0.00005 0.0086
GNG11 4:11074736-11079756 18.381 26.593 0.533 0.00035 0.0354
GPC3 X:17305527-17770816 16.338 8.928 −0.872 0.00005 0.0086
GPX3 7:64286947-64295117 30.626 17.682 −0.792 0.00005 0.0086
GSTM1 3:33874015-33880642 40.537 61.121 0.592 0.00005 0.0086
GSTO1 26:25088447-25097722 16.668 25.758 0.628 0.00005 0.0086
HDAC10 5:119814024-119819662 3.337 5.156 0.628 0.00025 0.0277
HEBP2 9:77215759-77222555 9.297 13.808 0.571 0.00025 0.0277
HNF4G 14:40830784-40965794 18.177 13.052 −0.478 0.00055 0.0499
HOOK1 3:86647456-86719014 7.709 4.926 −0.646 0.00005 0.0086
HOPX 6:73639365-73649114 8.841 5.224 −0.759 0.00055 0.0499
HSPB8 17:58405436-58418688 10.167 15.476 0.606 0.00015 0.0192
HYOU1 15:30159426-30171029 41.647 27.360 −0.606 0.00005 0.0086
IFI27 21:59330457-59336765 52.798 98.679 0.902 0.00005 0.0086
IFITM3 29:51341810-51368123 558.839 816.830 0.548 0.00010 0.0146
IRF6 16:75380659-75418348 6.314 9.481 0.586 0.00040 0.0391
ISG15 16:52714626-52715654 35.812 59.838 0.741 0.00005 0.0086
LOC100847320 27:138114-161660 0.722 1.358 0.912 0.00015 0.0192
LOC100848726 29:50712831-50713218 206.496 423.775 1.037 0.00005 0.0086
LOC100848941 21:2075268-2167679 23.499 16.438 −0.516 0.00020 0.0239
LOC510860 16:4939774-4950979 62.685 88.581 0.499 0.00010 0.0146
LOC524810 21:71453611-71596379 9.180 16.524 0.848 0.00005 0.0086
LOC540627 26:16130424-16159317 44.807 67.441 0.590 0.00005 0.0086
LOC786073 11:107260658-107267533 153.889 225.053 0.548 0.00010 0.0146
LRRC25 7:4702830-4708713 6.805 10.810 0.668 0.00010 0.0146
LST1 23:27524079-27526993 12.877 21.210 0.720 0.00020 0.0239
MIR365-2 19:18810082-18811372 0.825 10.836 3.715 0.00005 0.0086
MKNK1 3:100126012-100172590 35.636 25.591 −0.478 0.00015 0.0192
MSR1 27:19976239-20058029 10.613 16.751 0.658 0.00005 0.0086
MYOM1 24:37673539-37817780 1.312 0.630 −1.058 0.00040 0.0391
NPC2 10:86170652-86179237 92.901 132.098 0.508 0.00005 0.0086
NUFIP1 12:15163420-15203164 13.200 7.426 −0.830 0.00005 0.0086
PCDH7 6:51536696-52011680 2.654 1.318 −1.010 0.00005 0.0086
PCSK5 8:52196351-52715122 11.589 8.282 −0.485 0.00010 0.0146
PGCP 14:69287216-69893488 2.546 4.513 0.826 0.00015 0.0192
PRUNE2 8:52957790-53036819 10.746 14.944 0.476 0.00020 0.0239
PTGER3 3:74488088-74589990 7.829 3.859 −1.021 0.00005 0.0086
PYROXD2 26:19334004-19359393 13.577 20.835 0.618 0.00020 0.0239
RGS2 4:58723599-58724929 5.763 10.749 0.899 0.00005 0.0086
RN28S1 3:35428044-35862958 383.558 767.972 1.002 0.00050 0.0467
RN5-8S1 25:32467531-32467688 761.308 2520.190 1.727 0.00005 0.0086
RNASE6 10:26402505-26404143 13.589 21.187 0.641 0.00005 0.0086
RNF150 17:16939480-17220422 4.004 1.299 −1.624 0.00005 0.0086
ROBO2 1:24082833-24592295 3.212 2.147 −0.581 0.00020 0.0239
S100A11 3:18765878-18770271 37.152 55.245 0.572 0.00015 0.0192
SALL1 18:19639132-19657385 12.502 8.288 −0.593 0.00005 0.0086
SELL 16:38147609-38173246 9.491 14.272 0.589 0.00005 0.0086
SFRP2 17:3829563-3838138 2.129 0.636 −1.743 0.00005 0.0086
SFTPA1 28:35850156-35867073 4.006 2.182 −0.877 0.00025 0.0277
SIGLEC12 18:57588039-57596060 4.484 7.160 0.675 0.00015 0.0192
SIX1 10:73068133-73073934 1.255 0.416 −1.594 0.00005 0.0086
SLC10A7 17:11923413-12252718 5.001 3.181 −0.653 0.00015 0.0192
SLC2A5 16:45244700-45255826 4.359 0.410 −3.412 0.00005 0.0086
SLC41A2 5:68697936-68842834 48.840 31.419 −0.636 0.00005 0.0086
SLC45A3 16:3243333-3261978 4.388 2.053 −1.096 0.00005 0.0086
SLC5A8 5:65385341-65454064 2.067 0.553 −1.901 0.00005 0.0086
SMAD1 17:12877363-12989110 25.185 17.865 −0.495 0.00025 0.0277
SPTSSB 1:106851521-106880436 7.439 12.679 0.769 0.00005 0.0086
TCIRG1 29:46211734-46223102 20.358 28.700 0.495 0.00045 0.0434
TGM2 13:67663047-67697628 12.721 18.074 0.507 0.00015 0.0192
TM4SF5 19:27210644-27216978 78.602 107.731 0.455 0.00025 0.0277
TMSB10 11:49933203-49934214 647.567 886.612 0.453 0.00055 0.0499
TMSB4 1:51022807-51023449 53.115 79.168 0.576 0.00005 0.0086
TNFRSF8 16:42437033-42512705 2.533 1.513 −0.743 0.00005 0.0086
UCP2 15:54193876-54202724 28.975 41.770 0.528 0.00005 0.0086
UGGT1 2:4222092-4333464 10.663 7.574 −0.493 0.00005 0.0086
UGT2A3 6:86810491-86838901 12.425 18.879 0.604 0.00005 0.0086
UGT3A1 20:38221291-38259719 0.442 1.961 2.151 0.00015 0.0192
VIM 13:31944988-31952941 34.456 47.092 0.451 0.00025 0.0277
WDR35 11:78912231-78963232 19.525 10.498 −0.895 0.00005 0.0086
WFDC2 13:75077193-75084339 15.124 8.167 −0.889 0.00030 0.0311
  1. *Fold change estimates are relative to LRFI, inefficient group.
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