Hub : Traits

Se content in liver

Tags: Physiology · Liver

Project: vulpe_liver_2014

4 loci · 13 genes with independent associations · 97 total associated genes

Significant Loci

#	Chr	Start pos	End pos	# assoc genes	# joint models	Best TWAS P	Best GWAS P	Cond GWAS P	Joint genes
1	chr1	231783442	237208093	79	10	8.94e-10	1.00e-08	1.00e+00	Btaf1 Cyp26c1 Exoc6 LOC120100025 Marchf5 Pank1 Pde6c
2	chr1	238391248	240123287	15	1	8.33e-08	1.03e-07	1.00e+00	Tctn3
3	chr7	16846139	17894498	2	1	6.65e-10	4.68e-04	6.76e-03	LOC103690230
4	chr14	34177603	35456143	1	1	7.49e-13	2.25e-03	1.00e+00	Ociad2

Pleiotropic Associations

Trait	Chi2 ratio	# genes+	# genes++	% genes++	Corr	Corr P	Genes
BMI with tail	13.8	1	1	7.7	0	1.00e+00	Ociad2
Body weight	3.71	1	0	0	0	1.00e+00	Ociad2
Heart weight	9.93	1	0	0	0	1.00e+00	Ociad2
Left kidney weight	28.27	1	1	7.7	0	1.00e+00	Ociad2
Right kidney weight	6.23	1	0	0	0	1.00e+00	Ociad2
Length with tail	4.44	2	0	0	0	1.00e+00	Pcgf5 Rpp30
Tibia length	7.31	1	0	0	0	1.00e+00	Ociad2
Patch foraging indifference point 0 sec	9.79	1	0	0	0	1.00e+00	LOC103690230
Indifference point function ln k	16.65	1	0	0	0	1.00e+00	Ociad2
Indifference point function log k	16.65	1	0	0	0	1.00e+00	Ociad2
Patch foraging total patch changes 0 sec	10.12	1	0	0	0	1.00e+00	LOC103690230
Patch foraging total patch changes 18 sec	13.67	1	0	0	0	1.00e+00	Ociad2
Patch foraging total patch changes 24 sec	14.18	1	0	0	0	1.00e+00	Ociad2
Locomotor activity	12.26	1	0	0	0	1.00e+00	LOC103690230
Locomotor testing distance	10.1	1	0	0	0	1.00e+00	LOC103690230
Reaction time num false alarms	17.2	1	0	0	0	1.00e+00	Ociad2
Reaction time num false alarms AUC	9.94	1	0	0	0	1.00e+00	Ociad2
Reaction time omissions	25.94	1	1	7.7	0	1.00e+00	Ociad2
Condit. Reinf. active minus inactive responses	13.13	1	0	0	0	1.00e+00	Ociad2
Condit. Reinf. active-inactive response ratio	13.79	1	0	0	0	1.00e+00	Ociad2
Condit. Reinf. active responses	18.34	1	0	0	0	1.00e+00	Ociad2
Condit. Reinf. lever reinforcers received	12.87	1	0	0	0	1.00e+00	Ociad2
Intermitt. access escalation Index	38.02	1	1	7.7	0	1.00e+00	Ociad2
Post-drug Anxiety	21.14	1	0	0	0	1.00e+00	Ociad2
One hour access (0.3 mA shock)	12.44	4	0	0	-1	6.76e-34	Cyp26a1 Cyp26c1 Exoc6 Marchf5
Bone: apparent density	9.35	11	0	0	-1	1.55e-75	Btaf1 Cpeb3 Cyp26a1 Exoc6 Hectd2 LOC102553702 LOC120100025 Marchf5 Pcgf5 Rpp30 Tnks2
Bone: endosteal estimation	7.93	8	0	0	-1	2.77e-35	Cyp26a1 Cyp26c1 Exoc6 Fra10ac1 Marchf5 Myof Pde6c Tnks2
Bone: endosteal perimeter	7.58	8	0	0	-1	5.07e-41	Btaf1 Cyp26a1 Cyp26c1 Exoc6 Marchf5 Myof Pde6c Tnks2
Bone: marrow area	7.92	10	0	0	-1	1.15e-41	Btaf1 Cyp26a1 Cyp26c1 Exoc6 Fra10ac1 Marchf5 Myof Pde6c Slc35g1 Tnks2
Bone: maximum diameter	9.95	21	0	0	-1	3.15e-208	Ankrd1 Btaf1 Cpeb3 Cyp26a1 Cyp26c1 Exoc6 Hectd2 Hhex Htr7 Ide LOC102553702 LOC120100024 LOC120100025 Marchf5 Myof Pank1 Pcgf5 Pde6c Rpp30 Slc35g1 Tnks2
Bone: maximum force	7.87	1	0	0	0	1.00e+00	Ociad2
Bone: minimum diameter	10.48	26	1	7.7	-1	2.57e-166	Btaf1 Cpeb3 Cyp26a1 Cyp26c1 Entpd1 Exoc6 Ffar4 Fra10ac1 Hells Hhex Ide LOC100911555 LOC102553702 LOC120097534 LOC120100025 Marchf5 Myof Noc3l Ociad2 Pde6c Pdlim1 Plce1 Slc35g1 Sorbs1 Tctn3 Tnks2
Bone: periosteal estimation	7.41	8	0	0	-1	3.03e-117	Btaf1 Cpeb3 Cyp26a1 Cyp26c1 Exoc6 Ide Marchf5 Tnks2
Bone: periosteal perimeter	8.42	1	0	0	0	1.00e+00	Exoc6
Co content in liver	11.88	1	0	0	0	1.00e+00	LOC103690230
Cu content in liver	12.51	1	0	0	0	1.00e+00	Sorbs1
Sr content in liver	18.62	1	0	0	0	1.00e+00	Ociad2
Zn content in liver	12.66	4	0	0	1	5.50e-19	Btaf1 Marchf5 Rpp30 Tnks2

Associations by panel

Tissue	RNA modality	# hits	% hits/tests	Avg chisq
Adipose	alternative polyA	8	0.2	1.21
Adipose	alternative TSS	3	0.1	1.22
Adipose	gene expression	6	0.1	1.2
Adipose	isoform ratio	6	0.1	1.25
Adipose	intron excision ratio	1	0	1.45
Adipose	mRNA stability	4	0.1	1.21
BLA	alternative polyA	4	0.2	1.31
BLA	alternative TSS	2	0.1	1.02
BLA	gene expression	5	0.1	1.23
BLA	isoform ratio	5	0.2	1.21
BLA	intron excision ratio	0	0	1.25
BLA	mRNA stability	1	0	1.15
Brain	alternative polyA	6	0.2	1.24
Brain	alternative TSS	4	0.1	1.22
Brain	gene expression	9	0.1	1.22
Brain	isoform ratio	9	0.2	1.2
Brain	intron excision ratio	4	0.1	1.27
Brain	mRNA stability	4	0.1	1.15
Eye	alternative polyA	0	0	1.35
Eye	alternative TSS	0	0	1.11
Eye	gene expression	0	0	1.27
Eye	isoform ratio	0	0	1.05
Eye	intron excision ratio	0	0	1.31
Eye	mRNA stability	1	0.3	1.32
IL	alternative polyA	4	0.4	1.25
IL	alternative TSS	0	0	1.23
IL	gene expression	4	0.1	1.2
IL	isoform ratio	5	0.4	1.25
IL	intron excision ratio	1	0.1	1.29
IL	mRNA stability	1	0.1	1.14
LHb	alternative polyA	3	0.3	1.34
LHb	alternative TSS	0	0	1.2
LHb	gene expression	6	0.2	1.29
LHb	isoform ratio	5	0.4	1.25
LHb	intron excision ratio	1	0.1	1.37
LHb	mRNA stability	0	0	1.2
Liver	alternative polyA	9	0.3	1.32
Liver	alternative TSS	0	0	1.19
Liver	gene expression	3	0	1.22
Liver	isoform ratio	6	0.2	1.27
Liver	intron excision ratio	4	0.1	1.35
Liver	mRNA stability	0	0	1.24
NAcc	alternative polyA	2	0.1	1.24
NAcc	alternative TSS	1	0	1.12
NAcc	gene expression	6	0.1	1.22
NAcc	isoform ratio	6	0.1	1.21
NAcc	intron excision ratio	7	0.1	1.24
NAcc	mRNA stability	1	0	1.21
OFC	alternative polyA	3	0.3	1.37
OFC	alternative TSS	0	0	1.1
OFC	gene expression	6	0.1	1.2
OFC	isoform ratio	2	0.1	1.25
OFC	intron excision ratio	0	0	1.45
OFC	mRNA stability	1	0.1	1.21
PL	alternative polyA	7	0.2	1.22
PL	alternative TSS	2	0.1	1.18
PL	gene expression	8	0.1	1.2
PL	isoform ratio	7	0.1	1.17
PL	intron excision ratio	4	0.1	1.24
PL	mRNA stability	4	0.1	1.19
pVTA	alternative polyA	3	0.2	1.26
pVTA	alternative TSS	0	0	1.13
pVTA	gene expression	4	0.1	1.22
pVTA	isoform ratio	3	0.1	1.19
pVTA	intron excision ratio	2	0.1	1.3
pVTA	mRNA stability	1	0.1	1.19
RMTg	alternative polyA	2	0.3	1.35
RMTg	alternative TSS	0	0	0.88
RMTg	gene expression	1	0.1	1.22
RMTg	isoform ratio	0	0	1.18
RMTg	intron excision ratio	0	0	1.46
RMTg	mRNA stability	1	0.2	1.28