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Table 4 DAVID Functional Annotation Clustering of SAM genes in VE vs. CON subcutaneous fat

From: Genome-wide expression profiling in muscle and subcutaneous fat of lambs in response to the intake of concentrate supplemented with vitamin E

Annotation Cluster 1

Enrichment Score: 5.82

Category

Term

Count

%

P Value

Genes

 GOTERM_BP_FAT

GO:0016126 ~ sterol biosynthetic process

9

3.26

6.03E-08

EBP, MVD, CYP51A1, SQLE, DHCR7, HMGCS1, LSS, SIGMAR1, FDFT1

 GOTERM_BP_FAT

GO:0016125 ~ sterol metabolic process

12

4.35

6.02E-07

SREBF1, EBP, LDLR, MVD, CYP51A1, SQLE, DHCR7, INSIG1, HMGCS1, LSS, SIGMAR1, FDFT1

 GOTERM_BP_FAT

GO:0008610 ~ lipid biosynthetic process

20

7.25

1.04E-06

PGAP3, EBP, CRLS1, MVD, CYP51A1, GNE, HMGCS1, DPAGT1, LSS, SIGMAR1, LPCAT3, FDFT1, DOLK, PIGM, SQLE, DHCR7, AGPAT9, LTA4H, PCYT2, HSD17B7

 GOTERM_BP_FAT

GO:0008203 ~ cholesterol metabolic process

11

3.99

2.01E-06

SREBF1, EBP, LDLR, MVD, CYP51A1, SQLE, DHCR7, INSIG1, HMGCS1, LSS, FDFT1

 GOTERM_BP_FAT

GO:0006695 ~ cholesterol biosynthetic process

7

2.54

2.73E-06

EBP, MVD, CYP51A1, DHCR7, HMGCS1, LSS, FDFT1

 GOTERM_BP_FAT

GO:0006694 ~ steroid biosynthetic process

10

3.62

8.22E-06

EBP, MVD, CYP51A1, SQLE, DHCR7, HMGCS1, LSS, SIGMAR1, HSD17B7, FDFT1

 GOTERM_BP_FAT

GO:0008202 ~ steroid metabolic process

13

4.71

9.78E-05

SREBF1, EBP, MVD, LDLR, CYP51A1, HMGCS1, LSS, SIGMAR1, FDFT1, SQLE, DHCR7, INSIG1, HSD17B7

Annotation Cluster 2

Enrichment Score: 3.59

 GOTERM_BP_FAT

GO:0007005 ~ mitochondrion organization

13

4.71

2.11E-06

NDUFAF4, CAV2, DNM1L, MTX2, TOMM40, TIMM44, TIMM8A, TRNT1, GFM2, MRPL12, FXC1, PTCD2, DNAJA3

 GOTERM_BP_FAT

GO:0015031 ~ protein transport

29

10.51

3.19E-05

SNX19, MTX2, SNX4, RAB1A, COPB2, AP1S1, FXC1, VPS4A, NUP35, SEC23IP, ZW10, RAB2B, SRP54, VPS45, TOMM40, NUP85, AP4S1, TIMM44, TIMM8A, TIMM22, TRNT1, YWHAG, PLEKHA8, RAB22A, KPNA6, NOP58, NUP43, KPNA1, SNX11

 GOTERM_BP_FAT

GO:0045184 ~ establishment of protein localization

29

10.51

3.75E-05

SNX19, MTX2, SNX4, RAB1A, COPB2, AP1S1, FXC1, VPS4A, NUP35, SEC23IP, ZW10, RAB2B, SRP54, VPS45, TOMM40, NUP85, AP4S1, TIMM44, TIMM8A, TIMM22, TRNT1, YWHAG, PLEKHA8, RAB22A, KPNA6, NOP58, NUP43, KPNA1, SNX11

 GOTERM_BP_FAT

GO:0008104 ~ protein localization

31

11.23

6.84E-05

SNX19, MTX2, SNX4, AKAP10, RAB1A, COPB2, AP1S1, FXC1, PIKFYVE, VPS4A, NUP35, SEC23IP, ZW10, RAB2B, SRP54, VPS45, TOMM40, NUP85, AP4S1, TIMM44, TIMM8A, TIMM22, TRNT1, YWHAG, PLEKHA8, RAB22A, KPNA6, NOP58, NUP43, KPNA1, SNX11

 GOTERM_BP_FAT

GO:0033365 ~ protein localization in organelle

11

3.99

1.17E-04

TRNT1, SRP54, MTX2, FXC1, PIKFYVE, KPNA6, TOMM40, NOP58, TIMM44, KPNA1, TIMM8A

 GOTERM_BP_FAT

GO:0006626 ~ protein targeting to mitochondrion

6

2.17

1.89E-04

TRNT1, MTX2, FXC1, TOMM40, TIMM44, TIMM8A

 GOTERM_BP_FAT

GO:0070585 ~ protein localization in mitochondrion

6

2.17

1.89E-04

TRNT1, MTX2, FXC1, TOMM40, TIMM44, TIMM8A

 GOTERM_BP_FAT

GO:0034613 ~ cellular protein localization

18

6.52

3.25E-04

SRP54, VPS45, MTX2, TOMM40, AP4S1, TIMM44, TIMM8A, TRNT1, COPB2, YWHAG, AP1S1, FXC1, PIKFYVE, KPNA6, NOP58, SEC23IP, KPNA1, ZW10

 GOTERM_BP_FAT

GO:0070727 ~ cellular macromolecule localization

18

6.52

3.51E-04

SRP54, VPS45, MTX2, TOMM40, AP4S1, TIMM44, TIMM8A, TRNT1, COPB2, YWHAG, AP1S1, FXC1, PIKFYVE, KPNA6, NOP58, SEC23IP, KPNA1, ZW10

Annotation Cluster 3

Enrichment Score: 3.00

 GOTERM_BP_FAT

GO:0008299 ~ isoprenoid biosynthetic process

5

1.81

2.51E-04

MVD, HMGCS1, DPAGT1, FDFT1, DOLK

 GOTERM_BP_FAT

GO:0006720 ~ isoprenoid metabolic process

6

2.17

6.48E-04

RDH11, MVD, HMGCS1, DPAGT1, FDFT1, DOLK

 GOTERM_BP_FAT

GO:0016090 ~ prenol metabolic process

3

1.09

2.46E-3

DPAGT1, FDFT1, DOLK

 GOTERM_BP_FAT

GO:0016093 ~ polyprenol metabolic process

3

1.09

2.46E-3

DPAGT1, FDFT1, DOLK

Annotation Cluster 4

Enrichment Score: 1.72

 GOTERM_BP_FAT

GO:0034660 ~ ncRNA metabolic process

13

4.71

3.28E-04

GARS, EPRS, IARS, TRNT1, WDR55, NOLC1, METTL1, ADAT2, NOP58, ALG11, NSUN2, FTSJ2, MARS

 GOTERM_BP_FAT

GO:0034470 ~ ncRNA processing

9

3.26

1.03E-2

TRNT1, WDR55, NOLC1, METTL1, ADAT2, NOP58, ALG11, FTSJ2, NSUN2

 GOTERM_BP_FAT

GO:0042254 ~ ribosome biogenesis

6

2.17

4.59E-2

WDR55, TSR1, NOLC1, NOP58, ALG11, FTSJ2

Annotation Cluster 5

Enrichment Score: 1.68

 GOTERM_BP_FAT

GO:0006399 ~ tRNA metabolic process

8

2.90

2.83E-3

TRNT1, IARS, METTL1, ADAT2, GARS, EPRS, NSUN2, MARS

 GOTERM_BP_FAT

GO:0043039 ~ tRNA aminoacylation

4

1.45

3.69E-2

IARS, GARS, EPRS, MARS

 GOTERM_BP_FAT

GO:0043038 ~ amino acid activation

4

1.45

3.69E-2

IARS, GARS, EPRS, MARS

 GOTERM_BP_FAT

GO:0006418 ~ tRNA aminoacylation for protein translation

4

1.45

3.69E-2

IARS, GARS, EPRS, MARS

Annotation Cluster 6

Enrichment Score: 1.43

 GOTERM_BP_FAT

GO:0016192 ~ vesicle-mediated transport

20

7.25

2.23E-3

CAV2, RAB2B, LDLR, CNIH, VPS45, GARS, RER1, SNX4, AP4S1, RAB1A, COPB2, AP1S1, TFRC, CDC42SE2, ACTR1A, PIKFYVE, RAB22A, VPS4A, TRAPPC3, ZW10

 GOTERM_BP_FAT

GO:0016044 ~ membrane organization

12

4.35

4.24E-2

CAV2, COPB2, AP1S1, DNM1L, LDLR, TFRC, CDC42SE2, FXC1, RAB22A, PIKFYVE, SNX4, TIMM8A