Hub : Traits

Sr content in liver

Tags: Physiology · Liver

Project: vulpe_liver_2014

2 loci · 2 genes with independent associations · 6 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	chr5	142950162	144036879	5	1	2.71e-22	2.66e-01	8.93e-15	Stk40
2	chr16	72470120	73870022	1	1	7.95e-08	2.56e-04	8.70e-01	Nsd3

Pleiotropic Associations

Trait	Chi2 ratio	# genes+	# genes++	% genes++	Corr	Corr P	Genes
BMI with tail	2.75	2	0	0	1	4.20e-05	Lsm10 Stk40
Body weight	5.11	2	1	50	0.99	1.98e-04	Lsm10 Stk40
Glucose	13.67	2	0	0	-0.99	6.49e-06	Lsm10 Stk40
Left kidney weight	2.44	2	0	0	0	1.00e+00	Lsm10 Stk40
Right kidney weight	1.85	1	0	0	0	1.00e+00	Lsm10
Length with tail	2.74	2	0	0	0	1.00e+00	Lsm10 Stk40
Length without tail	2.55	1	0	0	0	1.00e+00	Stk40
Liver weight, left	12.91	2	0	0	1	5.48e-05	Lsm10 Stk40
Extensor digitorum longus weight	7.56	2	1	50	1	3.30e-06	Lsm10 Stk40
Soleus weight	9.81	2	1	50	1	1.49e-05	Lsm10 Stk40
Tibialis anterior weight	4.83	1	0	0	1	8.15e-04	Stk40
Patch foraging indifference point AUC	7.95	1	0	0	0.97	5.66e-03	Stk40
Patch foraging total patch changes 18 sec	9.38	1	0	0	0.99	2.64e-04	Stk40
Locomotor activity	6.67	2	0	0	-0.99	2.36e-04	Lsm10 Stk40
Locomotor testing distance	6.13	2	0	0	-0.98	3.53e-04	Lsm10 Stk40
Locomotor testing rearing	11.97	2	0	0	-1	2.39e-04	Lsm10 Stk40
Reaction time number correct	5.32	1	0	0	0	1.00e+00	Lsm10
Reaction time num false alarms	7.4	1	0	0	0	1.00e+00	Stk40
Reaction time num false alarms AUC	8.4	2	0	0	1	7.08e-05	Lsm10 Stk40
Reaction time trials correct on left	5.32	1	0	0	0	1.00e+00	Lsm10
Reaction time trials on left	5.65	1	0	0	0	1.00e+00	Lsm10
Median of all reaction times	6.36	1	0	0	0	1.00e+00	Stk40
Reaction time premature initiation rate	8.98	1	0	0	0	1.00e+00	Nsd3
Reaction time premature initiations	7.76	1	0	0	0	1.00e+00	Nsd3
Reaction time trials completed	5.65	1	0	0	0	1.00e+00	Lsm10
Reaction time trials AUC	6.7	1	0	0	0	1.00e+00	Lsm10
Condit. Reinf. lever presses	6.15	1	0	0	0.99	7.34e-03	Stk40
Short access day 10 total inactive lever presses	5.07	2	0	0	-1	1.88e-04	Lsm10 Stk40
Short access day 10 total locomotion	4.45	1	0	0	0	1.00e+00	Stk40
Condit. Reinf. active minus inactive responses	12.2	2	0	0	1	5.55e-05	Lsm10 Stk40
Condit. Reinf. active-inactive response ratio	12.39	2	0	0	1	2.10e-04	Lsm10 Stk40
Condit. Reinf. active responses	6.44	1	0	0	0	1.00e+00	Stk40
Incentive salience index mean	20.13	2	1	50	1	2.34e-05	Lsm10 Stk40
Condit. Reinf. lever presses	16.13	2	0	0	1	1.74e-04	Lsm10 Stk40
Total zone transitions, hab. session 1	5.56	1	0	0	0	1.00e+00	Nsd3
Novel to familiar place preference ratio	8.83	1	0	0	0	1.00e+00	Nsd3
Novelty place preference	9.51	1	0	0	0	1.00e+00	Nsd3
Time in novel zone, NPP test	10.3	1	0	0	0	1.00e+00	Nsd3
Pavlov. Cond. lever latency	7.67	2	0	0	-1	4.01e-04	Lsm10 Stk40
Pavlov. Cond. magazine entry latency	5.93	1	0	0	0	1.00e+00	Stk40
Pavlov. Cond. change in total contacts	8.02	2	0	0	0	1.00e+00	Lsm10 Stk40
Pavlov. Cond. index score	7.46	2	0	0	1	2.39e-04	Lsm10 Stk40
Pavlov. Cond. latency score	6.22	2	0	0	0	1.00e+00	Lsm10 Stk40
Pavlov. Cond. lever contacts	11.73	2	0	0	1	1.99e-04	Lsm10 Stk40
Pavlov. Cond. intertrial magazine entries	10.34	1	0	0	-1	4.94e-04	Stk40
Pavlov. Cond. lever-magazine prob. diff.	10.17	2	0	0	1	4.01e-05	Lsm10 Stk40
Pavlov. Cond. response bias	8.52	2	0	0	1	3.49e-03	Lsm10 Stk40
Bone: apparent density	9.11	1	0	0	1	5.61e-04	Stk40
Bone surface	9.57	2	0	0	1	1.65e-04	Lsm10 Stk40
Bone volume	15.23	2	1	50	1	2.03e-08	Lsm10 Stk40
Bone: connectivity density	5.71	1	0	0	0	1.00e+00	Stk40
Bone: post-yield work	5.14	1	0	0	0	1.00e+00	Lsm10
Bone: stiffness	5.86	1	0	0	0	1.00e+00	Nsd3
Bone: trabecular thickness	7.76	1	0	0	0	1.00e+00	Stk40
Cd content in liver	9.57	2	0	0	1	1.95e-03	Lsm10 Stk40
Fe content in liver	6.95	1	0	0	0	1.00e+00	Nsd3
Mg content in liver	8.75	2	0	0	0	1.00e+00	Lsm10 Stk40
Mn content in liver	9.5	2	0	0	0	1.00e+00	Lsm10 Stk40
Rb content in liver	15.59	2	0	0	-1	3.06e-05	Lsm10 Stk40
Se content in liver	7.94	1	0	0	0	1.00e+00	Lsm10

Associations by panel

Tissue	RNA modality	# hits	% hits/tests	Avg chisq
Adipose	alternative polyA	0	0	0.92
Adipose	alternative TSS	0	0	0.91
Adipose	gene expression	0	0	0.89
Adipose	isoform ratio	2	0	0.9
Adipose	intron excision ratio	0	0	0.87
Adipose	mRNA stability	0	0	0.88
BLA	alternative polyA	0	0	0.89
BLA	alternative TSS	0	0	0.85
BLA	gene expression	0	0	0.88
BLA	isoform ratio	0	0	0.86
BLA	intron excision ratio	0	0	0.85
BLA	mRNA stability	0	0	0.88
Brain	alternative polyA	0	0	0.89
Brain	alternative TSS	0	0	0.93
Brain	gene expression	0	0	0.87
Brain	isoform ratio	0	0	0.87
Brain	intron excision ratio	0	0	0.86
Brain	mRNA stability	0	0	0.9
Eye	alternative polyA	0	0	1.03
Eye	alternative TSS	0	0	0.84
Eye	gene expression	0	0	0.94
Eye	isoform ratio	0	0	0.94
Eye	intron excision ratio	0	0	0.79
Eye	mRNA stability	0	0	0.82
IC	alternative polyA	0	0	0.91
IC	alternative TSS	0	0	0.87
IC	gene expression	0	0	0.86
IC	isoform ratio	0	0	0.87
IC	intron excision ratio	0	0	0.85
IC	mRNA stability	0	0	0.84
IL	alternative polyA	0	0	0.82
IL	alternative TSS	0	0	0.9
IL	gene expression	0	0	0.92
IL	isoform ratio	0	0	0.89
IL	intron excision ratio	0	0	0.79
IL	mRNA stability	0	0	0.9
LHb	alternative polyA	0	0	0.87
LHb	alternative TSS	0	0	0.96
LHb	gene expression	0	0	0.88
LHb	isoform ratio	0	0	0.87
LHb	intron excision ratio	0	0	0.83
LHb	mRNA stability	0	0	0.88
Liver	alternative polyA	2	0.1	0.94
Liver	alternative TSS	0	0	0.86
Liver	gene expression	1	0	0.91
Liver	isoform ratio	2	0.1	0.92
Liver	intron excision ratio	0	0	0.87
Liver	mRNA stability	0	0	0.89
NAcc	alternative polyA	0	0	0.92
NAcc	alternative TSS	0	0	0.85
NAcc	gene expression	0	0	0.89
NAcc	isoform ratio	0	0	0.84
NAcc	intron excision ratio	0	0	0.84
NAcc	mRNA stability	0	0	0.87
OFC	alternative polyA	0	0	0.86
OFC	alternative TSS	0	0	0.83
OFC	gene expression	0	0	0.88
OFC	isoform ratio	0	0	0.92
OFC	intron excision ratio	0	0	0.76
OFC	mRNA stability	0	0	0.86
PL	alternative polyA	0	0	0.95
PL	alternative TSS	0	0	0.87
PL	gene expression	0	0	0.89
PL	isoform ratio	0	0	0.86
PL	intron excision ratio	0	0	0.82
PL	mRNA stability	1	0	0.86
pVTA	alternative polyA	0	0	0.89
pVTA	alternative TSS	0	0	0.83
pVTA	gene expression	0	0	0.89
pVTA	isoform ratio	0	0	0.82
pVTA	intron excision ratio	0	0	0.85
pVTA	mRNA stability	0	0	0.84
RMTg	alternative polyA	0	0	0.78
RMTg	alternative TSS	0	0	0.85
RMTg	gene expression	0	0	0.86
RMTg	isoform ratio	0	0	0.98
RMTg	intron excision ratio	0	0	0.8
RMTg	mRNA stability	0	0	0.91