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Pavlov. Cond. index score

Pavlovian Conditioned Approach, Sign/goal-tracking, average of LatencyScore, ProbDiff, and ResponseBias on days 4 and 5 of testing

Tags: Behavior · Pavlovian conditioned approach · Conditioned reinforcement

Project: p50_paul_meyer_2014

11 significantly associated models · 7 unique genes

Significant Loci

#	chr	p0	p1	# assoc genes	# joint models	best TWAS P	best SNP P	cond SNP P	% var exp	joint genes
1	1	151194048	154174144	5	1	2.3e-07	9.7e-07	1.00	100	Thap12
2	5	74868378	76264539	1	1	6.5e-08	2.3e-02	0.85	99	RGD1566134
3	7	16845355	16970279	1	1	7.2e-31	NaN	NA	NA	NA

p0: physical position of the start of the locus. p1: physical position of the end of the locus. # joint models: number of models selected by step-wise conditional analysis.

Pleiotropic Associations

Trait	chisq ratio	# genes⁺	# genes⁺⁺	% genes⁺⁺	corr	corr P	genes
BMI without tail	106.7	1	1	33	0.00	1.0e+00	NA
Body weight	7.7	1	1	33	0.00	1.0e+00	NA
Epididymis fat weight	87.6	1	1	33	0.00	1.0e+00	NA
Glucose	6.6	1	0	0	0.00	1.0e+00	NA
Heart weight	11.4	1	0	0	0.00	1.0e+00	NA
Left kidney weight	37.5	1	1	33	0.00	1.0e+00	NA
Right kidney weight	41.9	1	1	33	0.00	1.0e+00	NA
Tail length	58.1	1	1	33	0.00	1.0e+00	NA
Length with tail	3.2	1	0	0	0.00	1.0e+00	NA
Length without tail	71.1	1	1	33	0.00	1.0e+00	NA
Liver weight, left	23.6	1	1	33	0.00	1.0e+00	NA
Liver weight, right	7.6	2	0	0	0.00	1.0e+00	Rsf1 NA
Parametrial fat weight	26.4	1	1	33	0.00	1.0e+00	NA
Retroperitoneal fat weight	4.5	5	0	0	-0.94	1.7e-03	Capn5 Emsy Rsf1 Thap12 NA
Intraocular pressure	19.0	1	1	33	0.00	1.0e+00	NA
Extensor digitorum longus weight	25.8	1	1	33	0.00	1.0e+00	NA
Soleus weight	13.7	1	1	33	0.00	1.0e+00	NA
Tibialis anterior weight	59.9	1	1	33	0.00	1.0e+00	NA
Tibia length	5.3	1	0	0	0.00	1.0e+00	NA
Number of licking bursts	155.0	1	1	33	0.00	1.0e+00	NA
Food consumed during 24 hour testing period	17.5	1	0	0	0.00	1.0e+00	NA
Times rat made contact with spout	75.1	1	1	33	0.00	1.0e+00	NA
Mean time between licks in bursts	54.9	1	1	33	0.00	1.0e+00	NA
Mean num. licks in bursts	164.2	1	1	33	0.00	1.0e+00	NA
Std. dev. time between licks in bursts	177.7	1	1	33	0.00	1.0e+00	NA
Water consumed over 24 hours	9.1	1	0	0	0.00	1.0e+00	RGD1566134
Indifference point 0 sec	9.5	5	1	33	0.09	8.2e-01	Capn5 Emsy Dgat2 Thap12 NA
Indifference point AUC	42.1	1	1	33	0.00	1.0e+00	NA
Delay discounting total patch changes 0 sec	8.9	5	1	33	-0.05	9.0e-01	Capn5 Emsy Dgat2 Thap12 NA
Delay discounting total patch changes 12 sec	102.7	1	1	33	0.00	1.0e+00	NA
Delay discounting total patch changes 18 sec	175.3	1	1	33	0.00	1.0e+00	NA
Delay discounting total patch changes 24 sec	21.8	2	1	33	0.00	1.0e+00	NA RGD1566134
Delay discounting total patch changes 6 sec	67.7	2	1	33	0.00	1.0e+00	NA RGD1566134
Delay discounting time to switch 0 sec	5.6	2	0	0	0.00	1.0e+00	Dgat2 Thap12
Delay discounting water rate 0 sec	11.8	1	0	0	0.00	1.0e+00	NA
Delay discounting water rate 12 sec	26.1	1	1	33	0.00	1.0e+00	NA
Delay discounting water rate 18 sec	10.5	1	0	0	0.00	1.0e+00	NA
Delay discounting water rate 24 sec	62.7	1	1	33	0.00	1.0e+00	NA
Delay discounting water rate 6 sec	44.2	1	1	33	0.00	1.0e+00	NA
Locomotor testing distance	11.5	1	0	0	0.00	1.0e+00	NA
Locomotor testing rearing	16.8	1	1	33	0.00	1.0e+00	NA
Light reinforcement 1	54.8	1	1	33	0.00	1.0e+00	NA
Reaction time number correct	9.4	1	0	0	0.00	1.0e+00	NA
Reaction time num false alarms	56.4	1	1	33	0.00	1.0e+00	NA
Reaction time num false alarms AUC	79.5	1	1	33	0.00	1.0e+00	NA
Reaction time trials correct on left	9.4	1	0	0	0.00	1.0e+00	NA
Reaction time trials on left	10.3	1	0	0	0.00	1.0e+00	NA
Reaction time mean	41.3	1	1	33	0.00	1.0e+00	NA
Reaction time mean AUC	58.0	1	1	33	0.00	1.0e+00	NA
Median of all reaction times	51.2	1	1	33	0.00	1.0e+00	NA
Reaction time false alarm rate	63.4	1	1	33	0.00	1.0e+00	NA
Reaction time premature initiation rate	32.1	1	1	33	0.00	1.0e+00	NA
Reaction time premature initiations	34.3	1	1	33	0.00	1.0e+00	NA
Std. dev. reaction times	17.4	1	1	33	0.00	1.0e+00	NA
Reaction time trials completed	10.3	1	0	0	0.00	1.0e+00	NA
Reaction time trials AUC	15.6	1	0	0	0.00	1.0e+00	NA
Social responses	74.3	1	1	33	0.00	1.0e+00	NA
Social time	7.8	1	0	0	0.00	1.0e+00	NA
Cocaine response after cond. corrected	78.0	1	1	33	0.00	1.0e+00	NA
Cocaine response after cond. not corrected	102.3	1	1	33	0.00	1.0e+00	NA
Cocaine response before conditioning	28.6	1	1	33	0.00	1.0e+00	NA
Saline control response	26.0	2	1	33	0.00	1.0e+00	NA RGD1566134
Condit. Reinf. active minus inactive responses	12.4	5	1	33	0.01	9.8e-01	Capn5 Emsy Dgat2 Thap12 NA
Condit. Reinf. active-inactive response ratio	40.7	1	1	33	0.00	1.0e+00	NA
Condit. Reinf. active responses	9.8	6	0	0	0.55	1.3e-01	Capn5 Emsy Dgat2 Rsf1 Thap12 NA
Condit. Reinf. inactive responses	10.3	4	0	0	0.99	1.1e-02	Capn5 Dgat2 Thap12 NA
Condit. Reinf. lever presses	23.0	6	5	167	1.00	1.8e-08	Capn5 Emsy Dgat2 Rsf1 Thap12 RGD1566134
Condit. Reinf. lever reinforcers received	10.9	5	0	0	1.00	1.2e-07	Capn5 Emsy Dgat2 Rsf1 Thap12
Pavlov. Cond. lever latency	27.6	7	7	233	-0.98	5.2e-08	Capn5 Emsy Dgat2 Rsf1 Thap12 NA RGD1566134
Pavlov. Cond. magazine entry latency	28.0	7	1	33	0.94	5.0e-05	Capn5 Emsy Dgat2 Rsf1 Thap12 NA RGD1566134
Pavlov. Cond. change in total contacts	37.7	7	1	33	0.97	4.5e-07	Capn5 Emsy Dgat2 Rsf1 Thap12 NA RGD1566134
Pavlov. Cond. latency score	28.2	7	2	67	1.00	5.7e-14	Capn5 Emsy Dgat2 Rsf1 Thap12 NA RGD1566134
Pavlov. Cond. lever contacts	25.8	7	7	233	0.96	1.6e-05	Capn5 Emsy Dgat2 Rsf1 Thap12 NA RGD1566134
Pavlov. Cond. magazine entry number	36.8	7	1	33	-0.94	2.3e-05	Capn5 Emsy Dgat2 Rsf1 Thap12 NA RGD1566134
Pavlov. Cond. intertrial magazine entries	63.9	1	1	33	0.00	1.0e+00	NA
Pavlov. Cond. lever-magazine prob. diff.	25.5	7	1	33	1.00	3.2e-18	Capn5 Emsy Dgat2 Rsf1 Thap12 NA RGD1566134
Pavlov. Cond. response bias	26.7	7	7	233	0.98	2.9e-07	Capn5 Emsy Dgat2 Rsf1 Thap12 NA RGD1566134
Conditioned reinforcement - actives	18.5	1	0	0	0.00	1.0e+00	NA
Conditioned locomotion	9.9	1	0	0	0.00	1.0e+00	NA
Intermittent access intake day 1-15 change	61.5	1	1	33	0.00	1.0e+00	NA
Intermittent access intake escalation	82.5	1	1	33	0.00	1.0e+00	NA
Intermittent access intake escalation 2	42.5	1	1	33	0.00	1.0e+00	NA
Intermitt. access day 1 inactive lever presses	19.4	1	1	33	0.00	1.0e+00	NA
Intermitt. access escalation Index	9.2	1	0	0	0.00	1.0e+00	NA
Intermittent access day 1 total infusions	33.2	2	2	67	0.00	1.0e+00	NA RGD1566134
Intermittent access day 1 locomotion	18.4	1	1	33	0.00	1.0e+00	NA
Post-drug Anxiety	20.6	1	0	0	0.00	1.0e+00	NA
Baseline Anxiety	17.3	1	0	0	0.00	1.0e+00	RGD1566134
Lifetime Intake	24.7	1	1	33	0.00	1.0e+00	RGD1566134
Progressive ratio test 1 active lever presses	10.6	2	0	0	0.00	1.0e+00	NA RGD1566134
Progressive ratio test 1 breakpoint	10.0	2	0	0	0.00	1.0e+00	NA RGD1566134
Progressive ratio test 1 inactive lever presses	10.8	1	0	0	0.00	1.0e+00	NA
Progressive ratio test 2 active lever presses	13.3	2	0	0	0.00	1.0e+00	NA RGD1566134
Progressive ratio test 2 breakpoint	30.8	2	1	33	0.00	1.0e+00	NA RGD1566134
Total sessions with >9 infusions	15.1	1	0	0	0.00	1.0e+00	RGD1566134
Short access day 10 total inactive lever presses	12.2	1	0	0	0.00	1.0e+00	NA
Short access day 1 total infusions	21.8	1	0	0	0.00	1.0e+00	RGD1566134
Short access day 10 total infusions	21.3	2	1	33	0.00	1.0e+00	NA RGD1566134
Short access total infusions	56.6	1	1	33	0.00	1.0e+00	RGD1566134
Short access day 1 locomotion	13.9	2	0	0	0.00	1.0e+00	NA RGD1566134
Compulsive drug intake	22.6	2	1	33	0.00	1.0e+00	NA RGD1566134
One hour access (0.3 mA shock)	10.4	1	0	0	0.00	1.0e+00	NA
Context. condit. distance diff. score	102.1	2	1	33	0.00	1.0e+00	NA RGD1566134
Locomotion velocity, session 1	117.8	1	1	33	0.00	1.0e+00	NA
Locomotion distance, session 1	374.7	1	1	33	0.00	1.0e+00	NA
Locomotion velocity, session 2	82.2	1	1	33	0.00	1.0e+00	NA
Locomotion distance, session 2	776.0	1	1	33	0.00	1.0e+00	NA
Locomotion velocity, session 3	116.1	1	1	33	0.00	1.0e+00	NA
Locomotion distance, session 3	82.4	1	1	33	0.00	1.0e+00	NA
Stereotopy head waving bouts, day 3	8.8	1	0	0	0.00	1.0e+00	NA
Stereotopy head waving duration, day 3	22.3	2	1	33	0.00	1.0e+00	NA RGD1566134
Locomotion velocity, session 7	66.3	1	1	33	0.00	1.0e+00	NA
Locomotion distance, session 7	21.3	1	1	33	0.00	1.0e+00	NA
Stereotopy head waving bouts, day 7	37.2	2	2	67	0.00	1.0e+00	NA RGD1566134
Stereotopy head waving duration, day 7	48.2	2	1	33	0.00	1.0e+00	NA RGD1566134
Locomotion distance, session 8	102.8	1	1	33	0.00	1.0e+00	NA
Degree of sensitization distance	140.6	1	1	33	0.00	1.0e+00	NA
Degree of sensitization stereotypy	20.6	2	1	33	0.00	1.0e+00	NA RGD1566134
Condit. Reinf. active minus inactive responses	11.4	1	0	0	0.00	1.0e+00	RGD1566134
Condit. Reinf. active-inactive response ratio	65.1	1	1	33	0.00	1.0e+00	NA
Condit. Reinf. active responses	16.6	2	0	0	0.00	1.0e+00	NA RGD1566134
Condit. Reinf. inactive responses	12.8	2	0	0	0.00	1.0e+00	NA RGD1566134
Incentive salience index mean	13.1	2	0	0	0.00	1.0e+00	NA RGD1566134
Condit. Reinf. lever presses	35.1	1	1	33	0.00	1.0e+00	NA
Time in familiar zone, hab. session 1	16.4	1	0	0	0.00	1.0e+00	NA
Time in novel zone, hab. session 1	12.9	1	0	0	0.00	1.0e+00	NA
Total zone transitions, hab. session 1	415.6	1	1	33	0.00	1.0e+00	NA
Total locomotion distance, hab. session 1	171.4	1	1	33	0.00	1.0e+00	NA
Locomotion velocity, hab. session 1	218.6	1	1	33	0.00	1.0e+00	NA
Time in familiar zone, hab. session 2	48.9	1	1	33	0.00	1.0e+00	NA
Time in novel zone, hab. session 2	34.1	1	1	33	0.00	1.0e+00	NA
Total zone transitions, hab. session 2	256.1	1	1	33	0.00	1.0e+00	NA
Total locomotion distance, hab. session 2	90.8	2	1	33	0.00	1.0e+00	NA RGD1566134
Locomotion velocity, hab. session 2	95.5	2	1	33	0.00	1.0e+00	NA RGD1566134
Total zone transitions, NPP test	228.8	1	1	33	0.00	1.0e+00	NA
Total locomotion distance, NPP test	163.4	1	1	33	0.00	1.0e+00	NA
Locomotion velocity, NPP test	195.9	1	1	33	0.00	1.0e+00	NA
Pavlov. Cond. lever latency	8.6	1	0	0	0.00	1.0e+00	NA
Pavlov. Cond. magazine entry latency	56.4	1	1	33	0.00	1.0e+00	NA
Pavlov. Cond. change in total contacts	40.1	1	1	33	0.00	1.0e+00	NA
Pavlov. Cond. index score	51.9	1	1	33	0.00	1.0e+00	NA
Pavlov. Cond. latency score	16.6	1	0	0	0.00	1.0e+00	NA
Pavlov. Cond. lever contacts	13.3	1	0	0	0.00	1.0e+00	NA
Pavlov. Cond. magazine entry number	34.9	1	1	33	0.00	1.0e+00	NA
Pavlov. Cond. lever-magazine prob. diff.	50.5	1	1	33	0.00	1.0e+00	NA
Pavlov. Cond. response bias	52.4	1	1	33	0.00	1.0e+00	NA
Bone: apparent density	16.2	2	1	33	0.00	1.0e+00	NA RGD1566134
Bone surface	24.1	2	1	33	0.00	1.0e+00	NA RGD1566134
Bone volume	25.4	2	1	33	0.00	1.0e+00	NA RGD1566134
Bone: connectivity density	8.5	1	0	0	0.00	1.0e+00	NA
Bone: cortical porosity	109.3	1	1	33	0.00	1.0e+00	NA
Bone: cortical porosity	91.2	1	1	33	0.00	1.0e+00	NA
Bone: cortical thickness	8.8	1	0	0	0.00	1.0e+00	NA
Bone: cortical thickness	17.9	1	0	0	0.00	1.0e+00	NA
Bone: elastic displacement	28.2	1	1	33	0.00	1.0e+00	NA
Bone: endosteal estimation	9.9	2	1	33	0.00	1.0e+00	NA RGD1566134
Bone: endosteal perimeter	7.0	1	0	0	0.00	1.0e+00	RGD1566134
Bone: final force	39.5	1	1	33	0.00	1.0e+00	NA
Bone: final moment	31.9	1	1	33	0.00	1.0e+00	NA
Bone: marrow area	8.4	2	1	33	0.00	1.0e+00	NA RGD1566134
Bone: maximum diameter	7.2	1	0	0	0.00	1.0e+00	RGD1566134
Bone: maximum force	42.0	1	1	33	0.00	1.0e+00	NA
Bone: maximum moment	29.5	1	1	33	0.00	1.0e+00	NA
Bone: minimum diameter	57.3	1	1	33	0.00	1.0e+00	NA
Bone: periosteal estimation	7.8	1	0	0	0.00	1.0e+00	NA
Bone: periosteal perimeter	8.8	1	0	0	0.00	1.0e+00	NA
Bone: post-yield work	82.8	1	1	33	0.00	1.0e+00	NA
Bone: stiffness	90.4	1	1	33	0.00	1.0e+00	NA
Bone: tissue strength	81.0	1	1	33	0.00	1.0e+00	NA
Bone: trabecular number	39.4	1	1	33	0.00	1.0e+00	NA
Bone: trabecular thickness	10.6	2	0	0	0.00	1.0e+00	NA RGD1566134
Bone: trabecular tissue density	43.1	1	1	33	0.00	1.0e+00	NA
Distance traveled before self-admin	12.6	1	0	0	0.00	1.0e+00	NA
Delta time in open arm before/after self-admin	40.2	1	1	33	0.00	1.0e+00	NA
Extinction: sum of active levers before priming	12.2	1	0	0	0.00	1.0e+00	NA
Active lever presses in extinction session 6	9.2	1	0	0	0.00	1.0e+00	NA
Delta distance traveled before/after self-admin	11.3	1	0	0	0.00	1.0e+00	NA
Time in closed arm before self-admin	50.0	1	1	33	0.00	1.0e+00	NA
Time in closed arm after self-admin	25.8	1	1	33	0.00	1.0e+00	NA
Time in open arm after self-admin	31.3	1	1	33	0.00	1.0e+00	NA
Delta time to tail flick, test, before/after SA	20.0	1	0	0	0.00	1.0e+00	NA
Delay disc. indifference point, 0s delay	8.2	1	0	0	0.00	1.0e+00	RGD1566134
Delay disc. indifference point, 4s delay	23.4	1	0	0	0.00	1.0e+00	RGD1566134
Fecal boli incidents, locomotor time 1	11.8	1	0	0	0.00	1.0e+00	NA
Change in fecal boli incidents, locomotor task	8.8	1	0	0	0.00	1.0e+00	NA
Time >=10cm from walls, locomotor time 1	19.5	1	0	0	0.00	1.0e+00	NA
Time >=10cm from walls, locomotor time 2	17.9	2	1	33	0.00	1.0e+00	NA RGD1566134
Rest time, locomotor task time 2	8.8	1	0	0	0.00	1.0e+00	NA
Distance moved, locomotor task time 2	13.1	1	0	0	0.00	1.0e+00	NA
Weight adjusted by age	13.8	2	1	33	0.00	1.0e+00	NA RGD1566134
Seeking ratio, delayed vs. immediate footshock	23.8	1	1	33	0.00	1.0e+00	RGD1566134
Locomotion in novel chamber	10.2	1	0	0	0.00	1.0e+00	NA
Run reversals in cocaine runway, females	11.1	1	0	0	0.00	1.0e+00	RGD1566134
Run reversals in cocaine runway, males	25.4	1	1	33	0.00	1.0e+00	NA
Latency to leave start box in cocaine runway	18.8	1	0	0	0.00	1.0e+00	NA
Cd content in liver	140.5	1	1	33	0.00	1.0e+00	NA
Co content in liver	83.2	1	1	33	0.00	1.0e+00	NA
Fe content in liver	9.6	2	0	0	0.00	1.0e+00	NA RGD1566134
K content in liver	62.6	1	1	33	0.00	1.0e+00	NA
Mn content in liver	130.2	1	1	33	0.00	1.0e+00	NA
Na content in liver	15.7	1	0	0	0.00	1.0e+00	RGD1566134
Rb content in liver	31.4	1	1	33	0.00	1.0e+00	NA
Se content in liver	47.0	1	1	33	0.00	1.0e+00	NA
Zn content in liver	30.5	2	1	33	0.00	1.0e+00	NA RGD1566134

chisq ratio: Average Chi² statistic for the selected genes in the secondary trait, divided by the average statistic for all genes in the secondary trait. # genes⁺: Shared significant genes at Bonferroni correction. # genes⁺⁺: Shared significant genes at transcriptome-wide significance. % genes⁺⁺: Number of [++] genes as a percentage of primary trait’s total joint genes. corr: Correlation of effect sizes across the [+] genes.

Associations by panel

tissue	modality	# hits	% hits/tests	avg chisq
Adipose	alternative polyA	0	0.000	1.4
Adipose	alternative TSS	0	0.000	1.3
Adipose	gene expression	0	0.000	1.3
Adipose	isoform ratio	0	0.000	1.3
Adipose	intron excision ratio	0	0.000	1.1
Adipose	mRNA stability	1	0.029	1.3
BLA	alternative polyA	0	0.000	1.4
BLA	alternative TSS	0	0.000	1.5
BLA	gene expression	0	0.000	1.3
BLA	isoform ratio	0	0.000	1.2
BLA	intron excision ratio	0	0.000	1.2
BLA	mRNA stability	1	0.049	1.3
Brain	alternative polyA	0	0.000	1.4
Brain	alternative TSS	0	0.000	1.3
Brain	gene expression	1	0.011	1.3
Brain	isoform ratio	0	0.000	1.3
Brain	intron excision ratio	0	0.000	1.2
Brain	mRNA stability	1	0.023	1.3
Eye	alternative polyA	0	0.000	1.2
Eye	alternative TSS	0	0.000	1.3
Eye	gene expression	0	0.000	1.3
Eye	isoform ratio	0	0.000	1.4
Eye	intron excision ratio	0	0.000	1.4
Eye	mRNA stability	0	0.000	1.5
IL	alternative polyA	0	0.000	1.3
IL	alternative TSS	0	0.000	1.2
IL	gene expression	0	0.000	1.3
IL	isoform ratio	0	0.000	1.3
IL	intron excision ratio	0	0.000	1.3
IL	mRNA stability	0	0.000	1.3
LHb	alternative polyA	0	0.000	1.3
LHb	alternative TSS	0	0.000	1.2
LHb	gene expression	1	0.031	1.3
LHb	isoform ratio	0	0.000	1.3
LHb	intron excision ratio	0	0.000	1.3
LHb	mRNA stability	0	0.000	1.3
Liver	alternative polyA	0	0.000	1.5
Liver	alternative TSS	0	0.000	1.4
Liver	gene expression	0	0.000	1.3
Liver	isoform ratio	0	0.000	1.3
Liver	intron excision ratio	1	0.023	1.3
Liver	mRNA stability	0	0.000	1.3
NAcc	alternative polyA	0	0.000	1.5
NAcc	alternative TSS	0	0.000	1.3
NAcc	gene expression	0	0.000	1.3
NAcc	isoform ratio	0	0.000	1.3
NAcc	intron excision ratio	0	0.000	1.3
NAcc	mRNA stability	1	0.044	1.4
OFC	alternative polyA	0	0.000	1.4
OFC	alternative TSS	0	0.000	1.1
OFC	gene expression	0	0.000	1.3
OFC	isoform ratio	0	0.000	1.3
OFC	intron excision ratio	0	0.000	1.2
OFC	mRNA stability	0	0.000	1.4
PL	alternative polyA	0	0.000	1.4
PL	alternative TSS	0	0.000	1.3
PL	gene expression	2	0.027	1.3
PL	isoform ratio	2	0.090	1.4
PL	intron excision ratio	0	0.000	1.2
PL	mRNA stability	0	0.000	1.3

avg chisq: Average Chi² (squared Z-score) across all models in this panel for this trait.