Hub : Traits

Bone: cortical porosity

Tags: Physiology · Bone

Project: r01_doug_adams

2 loci · 2 genes with independent associations · 7 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	7	16845355	16970279	1	1	3.33e-46	NaN	NA	ENSRNOG00000064438
2	10	88340994	91822036	6	1	8.97e-09	8.33e-09	2.41e-02	Marchf10

Pleiotropic Associations

Trait	Chi2 ratio	# genes+	# genes++	% genes++	Corr	Corr P	Genes
BMI without tail	106.71	1	1	50	0	1.00e+00	ENSRNOG00000064438
Body weight	3.8	3	1	50	-0.18	7.00e-01	Mrc2 Marchf10 ENSRNOG00000064438
Epididymis fat weight	87.61	1	1	50	0	1.00e+00	ENSRNOG00000064438
Glucose	6.57	1	0	0	0	1.00e+00	ENSRNOG00000064438
Heart weight	11.41	1	0	0	0	1.00e+00	ENSRNOG00000064438
Left kidney weight	37.46	1	1	50	0	1.00e+00	ENSRNOG00000064438
Right kidney weight	41.88	1	1	50	0	1.00e+00	ENSRNOG00000064438
Tail length	58.13	1	1	50	0	1.00e+00	ENSRNOG00000064438
Length with tail	3.36	2	0	0	0	1.00e+00	Mrc2 ENSRNOG00000064438
Length without tail	71.11	1	1	50	0	1.00e+00	ENSRNOG00000064438
Liver weight, left	23.57	1	1	50	0	1.00e+00	ENSRNOG00000064438
Liver weight, right	9.6	1	0	0	0	1.00e+00	ENSRNOG00000064438
Parametrial fat weight	26.35	1	1	50	0	1.00e+00	ENSRNOG00000064438
Retroperitoneal fat weight	4.2	1	0	0	0	1.00e+00	ENSRNOG00000064438
Intraocular pressure	18.97	1	1	50	0	1.00e+00	ENSRNOG00000064438
Extensor digitorum longus weight	15.11	3	1	50	0.65	3.48e-01	Mrc2 Kcnh6 ENSRNOG00000064438
Soleus weight	13.71	1	1	50	0	1.00e+00	ENSRNOG00000064438
Tibialis anterior weight	59.91	1	1	50	0	1.00e+00	ENSRNOG00000064438
Tibia length	5.35	1	0	0	0	1.00e+00	ENSRNOG00000064438
Number of licking bursts	155.04	1	1	50	0	1.00e+00	ENSRNOG00000064438
Food consumed during 24 hour testing period	17.5	1	0	0	0	1.00e+00	ENSRNOG00000064438
Times rat made contact with spout	75.14	1	1	50	0	1.00e+00	ENSRNOG00000064438
Mean time between licks in bursts	54.91	1	1	50	0	1.00e+00	ENSRNOG00000064438
Mean num. licks in bursts	164.17	1	1	50	0	1.00e+00	ENSRNOG00000064438
Std. dev. time between licks in bursts	177.72	1	1	50	0	1.00e+00	ENSRNOG00000064438
Indifference point 0 sec	18.72	1	1	50	0	1.00e+00	ENSRNOG00000064438
Indifference point AUC	42.09	1	1	50	0	1.00e+00	ENSRNOG00000064438
Delay discounting total patch changes 0 sec	17.74	1	1	50	0	1.00e+00	ENSRNOG00000064438
Delay discounting total patch changes 12 sec	102.69	1	1	50	0	1.00e+00	ENSRNOG00000064438
Delay discounting total patch changes 18 sec	175.33	1	1	50	0	1.00e+00	ENSRNOG00000064438
Delay discounting total patch changes 24 sec	28.3	1	1	50	0	1.00e+00	ENSRNOG00000064438
Delay discounting total patch changes 6 sec	98.45	1	1	50	0	1.00e+00	ENSRNOG00000064438
Delay discounting water rate 0 sec	11.76	1	0	0	0	1.00e+00	ENSRNOG00000064438
Delay discounting water rate 12 sec	26.07	1	1	50	0	1.00e+00	ENSRNOG00000064438
Delay discounting water rate 18 sec	10.52	1	0	0	0	1.00e+00	ENSRNOG00000064438
Delay discounting water rate 24 sec	62.69	1	1	50	0	1.00e+00	ENSRNOG00000064438
Delay discounting water rate 6 sec	44.17	1	1	50	0	1.00e+00	ENSRNOG00000064438
Locomotor testing distance	11.51	1	0	0	0	1.00e+00	ENSRNOG00000064438
Locomotor testing rearing	16.83	1	1	50	0	1.00e+00	ENSRNOG00000064438
Light reinforcement 1	54.81	1	1	50	0	1.00e+00	ENSRNOG00000064438
Reaction time number correct	9.43	1	0	0	0	1.00e+00	ENSRNOG00000064438
Reaction time num false alarms	56.4	1	1	50	0	1.00e+00	ENSRNOG00000064438
Reaction time num false alarms AUC	79.45	1	1	50	0	1.00e+00	ENSRNOG00000064438
Reaction time trials correct on left	9.43	1	0	0	0	1.00e+00	ENSRNOG00000064438
Reaction time trials on left	10.33	1	0	0	0	1.00e+00	ENSRNOG00000064438
Reaction time mean	41.28	1	1	50	0	1.00e+00	ENSRNOG00000064438
Reaction time mean AUC	57.96	1	1	50	0	1.00e+00	ENSRNOG00000064438
Median of all reaction times	51.19	1	1	50	0	1.00e+00	ENSRNOG00000064438
Reaction time false alarm rate	63.39	1	1	50	0	1.00e+00	ENSRNOG00000064438
Reaction time premature initiation rate	32.14	1	1	50	0	1.00e+00	ENSRNOG00000064438
Reaction time premature initiations	34.33	1	1	50	0	1.00e+00	ENSRNOG00000064438
Std. dev. reaction times	17.36	1	1	50	0	1.00e+00	ENSRNOG00000064438
Reaction time trials completed	10.33	1	0	0	0	1.00e+00	ENSRNOG00000064438
Reaction time trials AUC	15.57	1	0	0	0	1.00e+00	ENSRNOG00000064438
Social responses	74.35	1	1	50	0	1.00e+00	ENSRNOG00000064438
Social time	7.75	1	0	0	0	1.00e+00	ENSRNOG00000064438
Cocaine response after cond. corrected	77.95	1	1	50	0	1.00e+00	ENSRNOG00000064438
Cocaine response after cond. not corrected	102.33	1	1	50	0	1.00e+00	ENSRNOG00000064438
Cocaine response before conditioning	28.56	1	1	50	0	1.00e+00	ENSRNOG00000064438
Saline control response	30.34	1	1	50	0	1.00e+00	ENSRNOG00000064438
Condit. Reinf. active minus inactive responses	18.93	3	1	50	-0.57	4.34e-01	Mrc2 Kcnh6 ENSRNOG00000064438
Condit. Reinf. active-inactive response ratio	30.2	2	1	50	0	1.00e+00	Kcnh6 ENSRNOG00000064438
Condit. Reinf. active responses	8.98	2	0	0	0	1.00e+00	Mrc2 ENSRNOG00000064438
Condit. Reinf. inactive responses	20.59	1	0	0	0	1.00e+00	ENSRNOG00000064438
Pavlov. Cond. lever latency	36.27	1	1	50	0	1.00e+00	ENSRNOG00000064438
Pavlov. Cond. magazine entry latency	104.88	1	1	50	0	1.00e+00	ENSRNOG00000064438
Pavlov. Cond. change in total contacts	130.08	1	1	50	0	1.00e+00	ENSRNOG00000064438
Pavlov. Cond. index score	62.19	1	1	50	0	1.00e+00	ENSRNOG00000064438
Pavlov. Cond. latency score	67.08	1	1	50	0	1.00e+00	ENSRNOG00000064438
Pavlov. Cond. lever contacts	29.45	1	1	50	0	1.00e+00	ENSRNOG00000064438
Pavlov. Cond. magazine entry number	150.01	1	1	50	0	1.00e+00	ENSRNOG00000064438
Pavlov. Cond. intertrial magazine entries	46.2	2	1	50	0	1.00e+00	Mrc2 ENSRNOG00000064438
Pavlov. Cond. lever-magazine prob. diff.	55.11	1	1	50	0	1.00e+00	ENSRNOG00000064438
Pavlov. Cond. response bias	30.81	1	1	50	0	1.00e+00	ENSRNOG00000064438
Conditioned reinforcement - actives	18.52	1	0	0	0	1.00e+00	ENSRNOG00000064438
Conditioned locomotion	9.86	1	0	0	0	1.00e+00	ENSRNOG00000064438
Intermittent access intake day 1-15 change	61.45	1	1	50	0	1.00e+00	ENSRNOG00000064438
Intermittent access intake escalation	82.51	1	1	50	0	1.00e+00	ENSRNOG00000064438
Intermittent access intake escalation 2	42.55	1	1	50	0	1.00e+00	ENSRNOG00000064438
Intermitt. access day 1 inactive lever presses	19.44	1	1	50	0	1.00e+00	ENSRNOG00000064438
Intermittent access day 1 total infusions	32.74	1	1	50	0	1.00e+00	ENSRNOG00000064438
Intermittent access day 1 locomotion	18.42	1	1	50	0	1.00e+00	ENSRNOG00000064438
Post-drug Anxiety	20.58	1	0	0	0	1.00e+00	ENSRNOG00000064438
Progressive ratio test 1 active lever presses	11.8	1	0	0	0	1.00e+00	ENSRNOG00000064438
Progressive ratio test 1 breakpoint	10.37	1	0	0	0	1.00e+00	ENSRNOG00000064438
Progressive ratio test 1 inactive lever presses	10.82	1	0	0	0	1.00e+00	ENSRNOG00000064438
Progressive ratio test 2 active lever presses	12.24	1	0	0	0	1.00e+00	ENSRNOG00000064438
Progressive ratio test 2 breakpoint	38.7	1	1	50	0	1.00e+00	ENSRNOG00000064438
Short access day 10 total inactive lever presses	12.15	1	0	0	0	1.00e+00	ENSRNOG00000064438
Short access day 10 total infusions	24.04	1	1	50	0	1.00e+00	ENSRNOG00000064438
Short access day 1 locomotion	17.24	1	0	0	0	1.00e+00	ENSRNOG00000064438
Compulsive drug intake	28.2	1	1	50	0	1.00e+00	ENSRNOG00000064438
One hour access (0.3 mA shock)	10.45	1	0	0	0	1.00e+00	ENSRNOG00000064438
Context. condit. distance diff. score	149.78	1	1	50	0	1.00e+00	ENSRNOG00000064438
Locomotion velocity, session 1	117.78	1	1	50	0	1.00e+00	ENSRNOG00000064438
Locomotion distance, session 1	374.74	1	1	50	0	1.00e+00	ENSRNOG00000064438
Locomotion velocity, session 2	82.2	1	1	50	0	1.00e+00	ENSRNOG00000064438
Locomotion distance, session 2	775.97	1	1	50	0	1.00e+00	ENSRNOG00000064438
Locomotion velocity, session 3	116.11	1	1	50	0	1.00e+00	ENSRNOG00000064438
Locomotion distance, session 3	82.39	1	1	50	0	1.00e+00	ENSRNOG00000064438
Stereotopy head waving bouts, day 3	8.83	1	0	0	0	1.00e+00	ENSRNOG00000064438
Stereotopy head waving duration, day 3	25.57	1	1	50	0	1.00e+00	ENSRNOG00000064438
Locomotion velocity, session 7	66.34	1	1	50	0	1.00e+00	ENSRNOG00000064438
Locomotion distance, session 7	21.3	1	1	50	0	1.00e+00	ENSRNOG00000064438
Stereotopy head waving bouts, day 7	42.65	1	1	50	0	1.00e+00	ENSRNOG00000064438
Stereotopy head waving duration, day 7	63.39	1	1	50	0	1.00e+00	ENSRNOG00000064438
Locomotion distance, session 8	102.75	1	1	50	0	1.00e+00	ENSRNOG00000064438
Degree of sensitization distance	140.58	1	1	50	0	1.00e+00	ENSRNOG00000064438
Degree of sensitization stereotypy	22.91	1	1	50	0	1.00e+00	ENSRNOG00000064438
Condit. Reinf. active-inactive response ratio	65.09	1	1	50	0	1.00e+00	ENSRNOG00000064438
Condit. Reinf. active responses	20.03	1	0	0	0	1.00e+00	ENSRNOG00000064438
Condit. Reinf. inactive responses	17.25	1	0	0	0	1.00e+00	ENSRNOG00000064438
Incentive salience index mean	15.58	1	0	0	0	1.00e+00	ENSRNOG00000064438
Condit. Reinf. lever presses	35.11	1	1	50	0	1.00e+00	ENSRNOG00000064438
Time in familiar zone, hab. session 1	16.37	1	0	0	0	1.00e+00	ENSRNOG00000064438
Time in novel zone, hab. session 1	17.41	1	0	0	0	1.00e+00	ENSRNOG00000064438
Total zone transitions, hab. session 1	415.63	1	1	50	0	1.00e+00	ENSRNOG00000064438
Total locomotion distance, hab. session 1	171.39	1	1	50	0	1.00e+00	ENSRNOG00000064438
Locomotion velocity, hab. session 1	218.59	1	1	50	0	1.00e+00	ENSRNOG00000064438
Time in familiar zone, hab. session 2	48.88	1	1	50	0	1.00e+00	ENSRNOG00000064438
Time in novel zone, hab. session 2	34.06	1	1	50	0	1.00e+00	ENSRNOG00000064438
Total zone transitions, hab. session 2	256.06	1	1	50	0	1.00e+00	ENSRNOG00000064438
Total locomotion distance, hab. session 2	133.05	1	1	50	0	1.00e+00	ENSRNOG00000064438
Locomotion velocity, hab. session 2	139.44	1	1	50	0	1.00e+00	ENSRNOG00000064438
Total zone transitions, NPP test	228.75	1	1	50	0	1.00e+00	ENSRNOG00000064438
Total locomotion distance, NPP test	163.42	1	1	50	0	1.00e+00	ENSRNOG00000064438
Locomotion velocity, NPP test	195.87	1	1	50	0	1.00e+00	ENSRNOG00000064438
Pavlov. Cond. lever latency	8.63	1	0	0	0	1.00e+00	ENSRNOG00000064438
Pavlov. Cond. magazine entry latency	56.4	1	1	50	0	1.00e+00	ENSRNOG00000064438
Pavlov. Cond. change in total contacts	40.12	1	1	50	0	1.00e+00	ENSRNOG00000064438
Pavlov. Cond. index score	51.85	1	1	50	0	1.00e+00	ENSRNOG00000064438
Pavlov. Cond. latency score	16.59	1	0	0	0	1.00e+00	ENSRNOG00000064438
Pavlov. Cond. lever contacts	13.28	1	0	0	0	1.00e+00	ENSRNOG00000064438
Pavlov. Cond. magazine entry number	34.9	1	1	50	0	1.00e+00	ENSRNOG00000064438
Pavlov. Cond. lever-magazine prob. diff.	50.47	1	1	50	0	1.00e+00	ENSRNOG00000064438
Pavlov. Cond. response bias	22.89	3	1	50	0	1.00e+00	Mrc2 Kcnh6 ENSRNOG00000064438
Bone: apparent density	18.55	1	1	50	0	1.00e+00	ENSRNOG00000064438
Bone surface	11.74	6	1	50	0.17	5.95e-01	Mrc2 Marchf10 Cyb561 Kcnh6 Strada ENSRNOG00000064438
Bone volume	17.64	4	1	50	-0.48	4.10e-01	Mrc2 Cyb561 Kcnh6 ENSRNOG00000064438
Bone: connectivity density	7.08	2	0	0	0	1.00e+00	Kcnh6 ENSRNOG00000064438
Bone: cortical apparent density	9.17	5	0	0	-1	9.28e-13	Crhr1 Mrc2 Marchf10 Cyb561 Strada
Bone: cortical porosity	30.24	7	1	50	1	4.23e-22	Crhr1 Mrc2 Marchf10 Cyb561 Kcnh6 Strada ENSRNOG00000064438
Bone: cortical thickness	8.79	1	0	0	0	1.00e+00	ENSRNOG00000064438
Bone: cortical thickness	17.92	1	0	0	0	1.00e+00	ENSRNOG00000064438
Bone: cortical tissue density	9.24	5	0	0	-1	4.02e-13	Crhr1 Mrc2 Marchf10 Cyb561 Strada
Bone: elastic displacement	28.18	1	1	50	0	1.00e+00	ENSRNOG00000064438
Bone: endosteal estimation	11.72	7	5	250	0.52	3.71e-02	Crhr1 Mrc2 Marchf10 Cyb561 Kcnh6 Strada ENSRNOG00000064438
Bone: endosteal perimeter	15.64	6	5	250	1	5.14e-16	Crhr1 Mrc2 Marchf10 Cyb561 Kcnh6 Strada
Bone: final force	39.54	1	1	50	0	1.00e+00	ENSRNOG00000064438
Bone: final moment	31.87	1	1	50	0	1.00e+00	ENSRNOG00000064438
Bone: marrow area	11.52	7	5	250	0.55	2.73e-02	Crhr1 Mrc2 Marchf10 Cyb561 Kcnh6 Strada ENSRNOG00000064438
Bone: maximum diameter	7.55	6	0	0	1	4.68e-14	Crhr1 Mrc2 Marchf10 Cyb561 Kcnh6 Strada
Bone: maximum force	41.95	1	1	50	0	1.00e+00	ENSRNOG00000064438
Bone: maximum moment	29.46	1	1	50	0	1.00e+00	ENSRNOG00000064438
Bone: minimum diameter	17.51	7	2	100	0.24	3.75e-01	Crhr1 Mrc2 Marchf10 Cyb561 Kcnh6 Strada ENSRNOG00000064438
Bone: periosteal estimation	9.98	7	2	100	0.58	1.95e-02	Crhr1 Mrc2 Marchf10 Cyb561 Kcnh6 Strada ENSRNOG00000064438
Bone: periosteal perimeter	11.16	7	0	0	0.68	5.47e-03	Crhr1 Mrc2 Marchf10 Cyb561 Kcnh6 Strada ENSRNOG00000064438
Bone: post-yield work	82.77	1	1	50	0	1.00e+00	ENSRNOG00000064438
Bone: stiffness	90.38	1	1	50	0	1.00e+00	ENSRNOG00000064438
Bone: tissue strength	80.98	1	1	50	0	1.00e+00	ENSRNOG00000064438
Bone: trabecular number	39.36	1	1	50	0	1.00e+00	ENSRNOG00000064438
Bone: trabecular thickness	10.72	2	0	0	0	1.00e+00	Mrc2 ENSRNOG00000064438
Bone: trabecular tissue density	43.06	1	1	50	0	1.00e+00	ENSRNOG00000064438
Distance traveled before self-admin	12.63	1	0	0	0	1.00e+00	ENSRNOG00000064438
Delta time in open arm before/after self-admin	40.25	1	1	50	0	1.00e+00	ENSRNOG00000064438
Extinction: sum of active levers before priming	12.19	1	0	0	0	1.00e+00	ENSRNOG00000064438
Active lever presses in extinction session 6	9.21	1	0	0	0	1.00e+00	ENSRNOG00000064438
Delta distance traveled before/after self-admin	11.33	1	0	0	0	1.00e+00	ENSRNOG00000064438
Time in closed arm before self-admin	50.04	1	1	50	0	1.00e+00	ENSRNOG00000064438
Time in closed arm after self-admin	25.79	1	1	50	0	1.00e+00	ENSRNOG00000064438
Time in open arm after self-admin	31.26	1	1	50	0	1.00e+00	ENSRNOG00000064438
Delta time to tail flick, test, before/after SA	20.03	1	0	0	0	1.00e+00	ENSRNOG00000064438
Fecal boli incidents, locomotor time 1	11.77	1	0	0	0	1.00e+00	ENSRNOG00000064438
Time >=10cm from walls, locomotor time 1	19.54	1	0	0	0	1.00e+00	ENSRNOG00000064438
Time >=10cm from walls, locomotor time 2	19.42	1	1	50	0	1.00e+00	ENSRNOG00000064438
Rest time, locomotor task time 2	8.83	1	0	0	0	1.00e+00	ENSRNOG00000064438
Distance moved, locomotor task time 2	13.12	1	0	0	0	1.00e+00	ENSRNOG00000064438
Weight adjusted by age	16.68	1	1	50	0	1.00e+00	ENSRNOG00000064438
Locomotion in novel chamber	10.2	1	0	0	0	1.00e+00	ENSRNOG00000064438
Run reversals in cocaine runway, males	25.4	1	1	50	0	1.00e+00	ENSRNOG00000064438
Latency to leave start box in cocaine runway	18.78	1	0	0	0	1.00e+00	ENSRNOG00000064438
Cd content in liver	140.46	1	1	50	0	1.00e+00	ENSRNOG00000064438
Co content in liver	83.15	1	1	50	0	1.00e+00	ENSRNOG00000064438
Fe content in liver	10.34	1	0	0	0	1.00e+00	ENSRNOG00000064438
K content in liver	62.65	1	1	50	0	1.00e+00	ENSRNOG00000064438
Mn content in liver	130.23	1	1	50	0	1.00e+00	ENSRNOG00000064438
Rb content in liver	31.44	1	1	50	0	1.00e+00	ENSRNOG00000064438
Se content in liver	46.95	1	1	50	0	1.00e+00	ENSRNOG00000064438
Zn content in liver	45.96	1	1	50	0	1.00e+00	ENSRNOG00000064438

Associations by panel

Tissue	RNA modality	# hits	% hits/tests	Avg chisq
Adipose	alternative polyA	0	0	0.98
Adipose	alternative TSS	0	0	1.06
Adipose	gene expression	0	0	1.12
Adipose	isoform ratio	0	0	1.07
Adipose	intron excision ratio	0	0	1.02
Adipose	mRNA stability	0	0	1.12
BLA	alternative polyA	0	0	0.97
BLA	alternative TSS	0	0	1.16
BLA	gene expression	1	0	1.12
BLA	isoform ratio	0	0	0.98
BLA	intron excision ratio	2	0.1	1.11
BLA	mRNA stability	0	0	1.1
Brain	alternative polyA	1	0	0.99
Brain	alternative TSS	0	0	1.04
Brain	gene expression	2	0	1.1
Brain	isoform ratio	0	0	1.01
Brain	intron excision ratio	3	0.1	1.1
Brain	mRNA stability	0	0	1.11
Eye	alternative polyA	0	0	1.19
Eye	alternative TSS	0	0	0.89
Eye	gene expression	0	0	1.08
Eye	isoform ratio	0	0	1
Eye	intron excision ratio	0	0	1.12
Eye	mRNA stability	0	0	0.99
IL	alternative polyA	0	0	0.98
IL	alternative TSS	0	0	0.89
IL	gene expression	0	0	1.06
IL	isoform ratio	0	0	1.01
IL	intron excision ratio	0	0	1
IL	mRNA stability	0	0	1.11
LHb	alternative polyA	0	0	0.93
LHb	alternative TSS	0	0	0.84
LHb	gene expression	0	0	1.07
LHb	isoform ratio	0	0	0.93
LHb	intron excision ratio	0	0	1.1
LHb	mRNA stability	0	0	1.16
Liver	alternative polyA	0	0	1.05
Liver	alternative TSS	0	0	1.05
Liver	gene expression	0	0	1.11
Liver	isoform ratio	0	0	1.02
Liver	intron excision ratio	1	0	1.15
Liver	mRNA stability	0	0	1.11
NAcc	alternative polyA	0	0	1.02
NAcc	alternative TSS	0	0	1.19
NAcc	gene expression	1	0	1.12
NAcc	isoform ratio	0	0	1.03
NAcc	intron excision ratio	0	0	1.09
NAcc	mRNA stability	0	0	1.07
OFC	alternative polyA	0	0	0.92
OFC	alternative TSS	0	0	0.91
OFC	gene expression	0	0	1.12
OFC	isoform ratio	0	0	1.11
OFC	intron excision ratio	0	0	0.96
OFC	mRNA stability	0	0	1.1
PL	alternative polyA	0	0	1.02
PL	alternative TSS	0	0	1.05
PL	gene expression	1	0	1.1
PL	isoform ratio	2	0.1	1.18
PL	intron excision ratio	2	0.1	1.08
PL	mRNA stability	0	0	1.09