Table 5 Five topmost significantly enriched biological functions for carcass merit traits, and genes involved in the specific function

HCW

Gene expression (23)

BMP7, BTRC, CTCFL, DTX1, HIF3A, IRF9, KAT7, KDM8, LGALS1, MAPK1, MRAS, MS4A15, NFIA, NR5A1, PARD3, PCTP, PEG10, PPARGC1A, RNF4, RXRB, SIAH1, TADA3, TFCP2L1

Carbohydrate metabolism (26)

AGMO, ALPI, BID, BMP7, CMAS, CYP2J2, FCGR2B, GRPR, KDM8, LGALS1, MAPK1, MRAS, NGFR, PARD3, PCTP, PDK2, PIGP, PIK3CB, PLA2G2A, PLEKHA3, PPARGC1A, PRKCB, PTHLH, ST8SIA1, UGT2B17, VDAC1

Nucleic acid metabolism (18)

ADCY4, ATP5PF, BMP7, CFTR, CMAS, GART, GNAI1, GRPR, MAPK1, NUDT9, OLA1, PDK2, PPARGC1A, PRKCB, PTHLH, SLC25A5, ST8SIA1, VDAC1

Small molecule biochemistry (54)

ACSL6, AGMO, AKR1C3, AKR1C4, ALPI, ANGPTL4, ATP5PF, BID, BMP7, CFTR, CLEC11A, CMAS, CNTFR, CYP2J2, DHRS4, ELOVL4, ERLIN1, FCGR2B, GBA3, GNAI1, GRPR, INHA, KCNE2, KCNE1B, LGALS1, MAPK1, MOGAT2, MRAS, NGFR, NR5A1, P2RY13, PARD3, PCCB, PCSK2, PCTP, PDK2, PIGP, PIK3CB, PLA2G2A, PLEKHA3, PPARGC1A, PPARGC1B, PRKCB, PTHLH, RXRB, SLC22A6, ST8SIA1

TFCP2L1, TGM1, TTR, UGT2B11, UGT2B17, UPK2, VDAC1

Molecular transport (45)

ACSL6, AGMO, ALPI, ANGPTL4, ATP10A, ATP6V1E1, ATP6V1G1, BID, BMP7, CA4, CCS, CFTR, CLEC11A, CLIC4, CNTFR, COQ7, FCGR2B, GNAI1, GRPR, HBA1/HBA2, INHA, KCNE2, KCNE1B, KCNK2, LGALS1, MAPK1, MOGAT2, MRAS, NGFR, NR5A1, P2RY13, PCTP, PDK2, PIK3CB, PLA2G2A, PPARGC1A, PPARGC1B, PRKCB, PTHLH, SLC20A2, SLC22A6, ST8SIA1, TTR, UPK2, VDAC1

AFAT

Carbohydrate metabolism (22)

AGMO, BID, BMP7, CMAS, GRPR, KDM8, LGALS1, MAPK1, MRAS, NGFR, PARD3, PDK2, PIK3CB, PLA2G2A, PPARGC1A, PPARGC1B, PTHLH, ST8SIA1, UGT2B17

Nucleic acid metabolism (10)

BID, BMP7, CMAS, GART, GNAI1, GRPR, MAPK1, PDK2, ST8SIA1, UGT2B17

Small molecule biochemistry (36)

ACSL6, AGMO, BID, BMP7, CFTR, CLEC11A, CMAS, CNTFR, DHRS4, ERLIN1, GART, GBA3, GNAI1, GRPR, KDM8, LGALS1, MAPK1, MOGAT2, MRAS, NGFR, NR5A1, P2RY13, PARD3, PDK2, PIGP, PIK3CB, PLA2G2A, PLEKHA3, PPARGC1A, PPARGC1B, PTHLH, SLC22A6, ST8SIA1, TFCP2L1, TGM1, UGT2B17

Lipid metabolism (31)

ACSL6, AGMO, BID, BMP7, CFTR, CLEC11A, CNTFR, DHRS4, ERLIN1, GBA3, GNAI1, LGALS1, MAPK1, MOGAT2, MRAS, NGFR, NR5A1, P2RY13, PARD3, PDK2, PIGP, PIK3CB, PLA2G2A, PLEKHA3, PPARGC1A, PPARGC1B, PTHLH, ST8SIA1, TFCP2L1, TGM1, UGT2B17

Cell morphology (25)

BID, BMP7, BTRC, CFTR, CLEC11A, CLIC4, CNTFR, FSCN1, GDF3, KCNK2, LGALS1, MAPK1, MRAS, NDUFAB1, NGFR, NR5A1, PCSK2, PLA2G2A, PLXNB2, PPARGC1A, PPARGC1B, PTHLH, SERPINA3, ST8SIA1, UPK2

REA

Cell morphology (71)

BID, CAMP, CCND1, CD4, CERS5, CFTR, CHL1, CLEC11A, CLIC4, CNTFR, CSTB, CUL3, DVL1, EPO, FGL1, GDF3, GSDMD, HAND1, HAUS4, HELLS, INHA, INTU, KCNK2, KIF11, KIFC1, LGALS1, LIF, LIMK2, MAPK1, MAPT, NDUFAB1, NEFH, NFIA, NGFR, NTRK2, OSMR, P2RY12, PALLD, PCTP, PEG10, PLXNB2, PPARGC1A, PPARGC1B, PTHLH, PTPN1, RNF4, SCYL1, SERPINA3, UCP1, UPK2

Cellular assembly and organization (58)

AMPH, ARHGAP32, ARPC4, ATG4B, ATG4C, ATL1, BID, CAMP, CBLB, CCND1, CD4, CFTR, CLEC11A, CLIC4, CLTB, CSTB, CTDNEP1, DRP2, DVL1, EPO, EXO5, HAND1, IDE, KCNK2, KIF11, KIF13B, KIFC1, KLHDC8B, LANCL1, LGALS1, LIF, MAPT, NDUFAB1, NDUFS2, NEFH, NFIA, NGFR, NLGN1, NR5A1, NTRK2, OLA1, P2RY12, PALLD, PARD3, PLXNB2, POLG, PPARGC1A, PPARGC1B, REPS2, SERPINA3, SLC25A5, SNX9, SRCIN1, TP53INP1, TRAK2, TTR, UCP1, VDAC1

Cellular function and maintenance (51)

ARHGAP32, ARMC4, ATL1, BID, CAMP, CCDC103, CCDC39, CCND1, CD4, CELSR2, CLEC11A, CLIC4, COQ7, CSTB, DVL1, EPO, FCGR2B, HAND1, IDE, IFNA2, KCNK2, KIF11, KIF13B, KIFC1, LANCL1, LGALS1, LIF, MAPT, NDUFAB1, NDUFS2, NEFH, NFIA, NGFR, NLGN1, NMNAT3, NTRK2, PARD3, PLXNB2, POLG, PPARGC1A, PPARGC1B, SCYL1, SERPINA3, SS18, ST8SIA1, TCF7L1, TFCP2L1, TP53INP1, TRAK2, UCP1, VDAC1

Lipid metabolism (77)

ABHD3, ACSL6, AGMO, AKR1C3, AKR1C4, AKR1C1/AKR1C2, ALPI, ANGPTL4, ANGPTL6, ATP5PF, BID, BMP7, C3AR1, CAMP, CD4, CERS5, CFTR, CLDN16, CLEC11A, CNTFR, CTDNEP1, CYP2C18, CYP2J2, CYP7B1, DEGS2, DHRS4, ELOVL4, EPO, ERLIN1, FCGR2B, FGL1, GBA3, GNAI1, GPC3, IL1RN, INHA, KCNE1B, KIF13B, KLF15, LGALS1, LIF, MAPK1, MAPT, MOGAT2, MRAS, NGFR, NONO, NR5A1, NTRK2, OSMR, P2RY12, P2RY13, PARD3, PCTP, PDK2, PIGP, PIK3CB, PLA2G2A, PLEKHA3, POLG, PPARGC1A, PPARGC1B, PRKCB, PTHLH, PTPN1, RENBP, RGS2, RXRB, SERPINE2, ST8SIA1, TFCP2L1, TRHR, TTR, UCP1, UGT2B4, UGT2B11, UGT2B17

Molecular transport (105)

ACSL6, AGMO, AKR1C4, AKR1C1/AKR1C2, ALPI, ANGPTL4, ANGPTL6, AOC3, APPBP2, ATP10A, ATP6V1E1, ATP6V1G1, BID, BMP7, C3AR1, CA4, CAMP, CBLB, CCS, CD4, CERS5, CFTR, CLDN16, CLEC11A, CLIC4, CNTFR, COQ7, CTDNEP1, DIO3, DUOXA2, DVL1, ELOVL4, EPO, FCGR2B, FGL1, GCNT4, GNAI1, GPC3, GRPR, HBA1/HBA2, IL1RN, INHA, IP6K1, KCNAB1, KCNE2, KCNE1B, KCNK2, KDM8, KIF13A, KIF13B, KLF15, LGALS1, LIF, MAPK1, MAPT, MOGAT2, MRAS, NDC1, NGFR, NONO, NR5A1, NTRK2, OGG1, OSMR, P2RY12, P2RY13, PCSK2, PCTP, PDK2, PIK3CB, PKN1, PLA2G2A, POLG, PPARGC1A, PPARGC1B, PRKCB, PTGER1, PTHLH, PTPN1, RENBP, RXRB, SCN9A, SLC16A4, SLC20A2, SLC22A6, SLC37A2, SLC39A7, SLC6A7, SLC8B1, SMG6, SNX9, SRCIN1, ST8SIA1, STRADA, STRADB, SVBP, SYNDIG1, TMED2, TP53INP1, TRAK2, TRHR, TTR, UCP1, VDAC1, ZFP36L1

LMY

Gene expression (23)

BMP7, BTRC, CTCFL, DTX1, HIF3A, IRF9, KAT7, KDM8, LGALS1, MAPK1, MRAS, MS4A15, NFIA, NR5A1, PARD3, PCTP, PEG10, PPARGC1A, RNF4, RXRB, SIAH1, TADA3, TFCP2L1

Lipid metabolism (47)

ACSL6, AGMO, AKR1C3, AKR1C4, ALPI, ANGPTL4, ATP5PF, BID, BMP7, CFTR, CLEC11A, CNTFR, CYP2J2, DHRS4, ELOVL4, ERLIN1, FCGR2B, GBA3, GNAI1, INHA, KCNE1B, LGALS1, LIF, MAPK1, MOGAT2, MRAS, NGFR, NR5A1, P2RY13, PARD3, PCCB, PCTP, PDK2, PIGP, PIK3CB, PLA2G2A, PLEKHA3, PPARGC1A, PPARGC1B, PRKCB, PTHLH, RXRB, ST8SIA1, TFCP2L1, TTR, UGT2B11, UGT2B17

Small molecule biochemistry (55)

ACSL6, AGMO, AKR1C3, AKR1C4, ALPI, ANGPTL4, ATP5PF, BID, BMP7, CFTR, CLEC11A, CMAS, CNTFR, CYP2J2, DHRS4, ELOVL4, ERLIN1, FCGR2B, GBA3, GNAI1, GRPR, INHA, KCNE1B, KCNE2, LGALS1, LIF, MAPK1, MOGAT2, MRAS, NGFR, NR5A1, P2RY13, PARD3, PCCB, PCSK2, PCTP, PDK2, PIGP, PIK3CB, PLA2G2A, PLEKHA3, PPARGC1A, PPARGC1B, PRKCB, PTHLH, RXRB, SLC22A6, ST8SIA1, TFCP2L1, TGM1, TTR, UGT2B11, UGT2B17, UPK2, VDAC1

Vitamin and mineral metabolism (17)

AKR1C3, AKR1C4, BMP7, CFTR, CYP2J2, DHRS4, INHA, LIF, NR5A1, P2RY13, PCTP, PPARGC1A, ST8SIA1, TTR, UGT2B11, UGT2B17, VDAC1

Carbohydrate metabolism (26)

AGMO, ALPI, BID, BMP7, CMAS, CYP2J2, FCGR2B, GRPR, KDM8, LGALS1, MAPK1, MRAS, NGFR, PARD3, PCTP, PDK2, PIGP, PIK3CB, PLA2G2A, PLEKHA3, PPARGC1A, PRKCB, PTHLH, ST8SIA1, UGT2B17, VDAC1

CMAR

Carbohydrate Metabolism (23)

AGMO, BID, BMP7, CMAS, GNAI1, GRPR, KDM8, LGALS1, MAPK1, MRAS, NGFR, PARD3, PCTP, PDK2, PIGP, PIK3CB, PLA2G2A, PLEKHA3, PPARGC1A, PPARGC1B, PTHLH, ST8SIA1, UGT2B17

Nucleic acid metabolism (10)

BID, BMP7, CMAS, GART, GNAI1, GRPR, MAPK1, PDK2, ST8SIA1, UGT2B17

Small molecule biochemistry (40)

ACSL6, AGMO, AKR1C3, AKR1C4, BID, BMP7, CFTR, CLEC11A, CMAS, CNTFR, DHRS4, ERLIN1, GART, GBA3, GNAI1, GRPR, KDM8, LGALS1, MAPK1, MOGAT2, MRAS, NGFR, NR5A1, P2RY13, PARD3, PCSK2, PCTP, PDK2, PIGP, PIK3CB, PLA2G2A, PLEKHA3, PPARGC1A, PPARGC1B, PTHLH, SLC22A6, ST8SIA1, TFCP2L1, TGM1, UGT2B17

Cellular development (24)

AKR1C3, B9D1, BID, BMP7, CBLB, CLEC11A, CLIC4, FSCN1, ITGA11, ITIH4, KCNK2, LGALS1, MAPK1, MRAS, NASP, NGFR, NR5A1, PIK3CB, PPARGC1A, PTHLH, TGM1, UGT2B17, UPK2, ZFP36L1

Lipid metabolism (33)

ACSL6, AGMO, AKR1C3, AKR1C4, BID, BMP7, CFTR, CLEC11A, CNTFR, DHRS4, ERLIN1, GBA3, GNAI1, LGALS1, MAPK1, MOGAT2, MRAS, NGFR, NR5A1, P2RY13, PARD3, PCTP, PDK2, PIGP, PIK3CB, PLA2G2A, PLEKHA3, PPARGC1A, PPARGC1B, PTHLH, ST8SIA1, TFCP2L1, UGT2B17