MPD: JaxKOMP-EAP genotype: Prim1<sup>em1(IMPC)J</sup>/Mmjax -/+

MULTIPLE (NUMERIC) TRAIT PROFILE PLOT — Early Adult Phenotyping study (EAP)

In this plot, data points are the computed genotype effect size vs. C57BL/6NJ controls, for all measured numeric phenotypes in JaxKOMP-EAP

Dimensions Width: × Height: px

Plot Options Group by Procedure Standard Error Show Effect Sizes RankZ

Significance Threshold p-Value Threshold Adjusted Unadjusted

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Procedure	JaxKOMP-EAP Trait	Trait Effect	Trait Effect SE	Trait Effect RankZ	Adjusted p-value	Unadjusted p-value

ABR test	auditory brainstem response (ABR) threshold, sound pressure level, 6 kHz pip	-10.350	2.8918	-2.2736	0.106	0.00274
ABR test	auditory brainstem response (ABR) threshold, sound pressure level, 12 kHz pip	3.7500	2.3936	0.79566	0.613	0.137
ABR test	auditory brainstem response (ABR) threshold, sound pressure level, 18 kHz pip	-9.9926	4.1194	-1.8888	0.241	0.0284
ABR test	auditory brainstem response (ABR) threshold, sound pressure level, 24 kHz pip	-9.9834	4.8438	-1.5880	0.332	0.0571
ABR test	auditory brainstem response (ABR) threshold, sound pressure level, 30 kHz pip	-11.277	5.9415	-1.4600	0.401	0.0759
body composition	body length	0.049385	0.046837	0.87336	0.603	0.304
body composition	body weight (at time of DXA)	0.67076	0.63027	0.64439	0.519	0.299
body composition	bone area, whole body scan, head excluded	0.24352	0.20037	1.2440	0.508	0.238
body composition	bone mineral content of whole body scan, head excluded	0.021855	0.016191	1.3759	0.469	0.191
body composition	bone mineral content to body weight ratio	0.00040776	0.00058981	0.71975	0.734	0.497
body composition	bone mineral density of whole body scan, head excluded	0.00041253	0.00059071	0.47411	0.749	0.493
body composition	fat tissue mass of whole body scan, head excluded	-0.52079	0.32800	-1.0052	0.345	0.128
body composition	fat tissue mass to body weight ratio	-0.019014	0.011463	-0.85571	0.302	0.113
body composition	lean tissue mass of whole body scan, head excluded	0.73835	0.28744	1.2469	0.147	0.0183
body composition	lean tissue mass to body weight ratio	0.017761	0.0095208	0.88121	0.266	0.0768
body composition	percent fat, whole body scan, head excluded	-1.9213	1.1119	-0.92680	0.285	0.0994
body composition	ratio of soft-tissue attenuation coefficients	0.0021299	0.0012357	0.92321	0.286	0.100
body composition	tissue area	0.078362	0.17133	0.47515	0.865	0.652
body composition	total tissue mass, whole body scan, head excluded	0.25917	0.18188	0.34678	0.407	0.170
clinical blood chemistry	alanine transaminase (plasma ALT)	-1.9157	2.2677	-0.20620	0.743	0.409
clinical blood chemistry	albumin (plasma Alb)	-0.23580	0.63177	-0.30106	0.893	0.713
clinical blood chemistry	alkaline phosphatase (plasma ALP)	-1.9674	4.0449	-0.86982	0.809	0.633
clinical blood chemistry	aspartate transaminase (plasma AST)	-19.416	5.4494	-0.88820	0.0517	0.00208
clinical blood chemistry	aspartate transaminase to alanine transaminase ratio (plasma AST:ALT)	-0.45185	0.13845	-1.3098	0.120	0.00409
clinical blood chemistry	blood urea nitrogen (BUN)	-0.92175	1.4079	-0.41037	0.745	0.521
clinical blood chemistry	calcium (plasma Ca)	-0.28504	0.070737	-1.6240	0.0137	0.000786
clinical blood chemistry	creatinine (plasma)	-0.023724	0.043626	-0.42401	0.780	0.593
clinical blood chemistry	glucose (plasma GLU, no fast)	-11.433	10.042	-0.15559	0.475	0.269
clinical blood chemistry	HDL cholesterol (plasma HDL)	-12.610	3.2314	-2.4397	0.0256	0.000958
clinical blood chemistry	HDL cholesterol to total cholesterol ratio	0.029174	0.017911	1.4046	0.431	0.121
clinical blood chemistry	phosphorus (plasma phosphate)	-0.91236	0.47636	-1.4040	0.273	0.0706
clinical blood chemistry	total bilirubin (plasma TBIL)	0.0083872	0.0077359	0.54536	0.644	0.293
clinical blood chemistry	total cholesterol (plasma CHOL, no fast)	-19.987	3.4034	-2.6546	0.00122	0.0000118
clinical blood chemistry	total protein (plasma TP)	-0.51915	1.3588	-0.45962	0.862	0.707
clinical blood chemistry	triglyceride (plasma TG, no fast)	-52.566	13.540	-1.8688	0.0327	0.00109
EKG	duration of PQ interval	0.53953	1.2483	0.71554	0.936	0.669
EKG	duration of PR interval	1.3355	1.2104	1.4299	0.838	0.280
EKG	duration of QRS interval	0.90642	0.35530	2.1425	0.653	0.0165
EKG	duration of QT interval	0.14708	1.1590	0.30278	0.986	0.900
EKG	duration of QTC interval, calculated by dividing QT interval by square root of preceding RR interval	-0.40057	1.4655	-0.36672	0.979	0.787
EKG	duration of RR interval	0.99841	2.4587	0.79598	0.885	0.688
EKG	duration of ST interval	-0.88546	1.1746	-0.65439	0.861	0.457
EKG	heart rate coefficient of variation (signal intensity)	1.3200	1.8839	1.1562	0.878	0.490
EKG	heart rate variability, mean of differences between sequential beats; beats per min	12.211	13.071	1.4188	0.853	0.358
EKG	heart rate, beats per min	-6.3457	19.159	-0.67639	0.902	0.743
EKG	mean R amplitude, mean amplitude of signal measured from isoelectric line to peak of QRS	-0.28216	0.13861	-2.1840	0.317	0.0513
EKG	mean SR amplitude, mean amplitude of signal measured from signal minimum line to peak of QRS	-0.23933	0.16472	-1.4699	0.518	0.158
EKG	number of signals	2.0247	8.4539	0.37104	0.964	0.812
EKG	proportion of number pairs of successive beat-to-beat intervals that exceed 50 ms	5.6625	8.9614	1.1270	0.882	0.533
EKG	QT dispersion, measured as inter-lead variability of QT intervals	5.1603	8.5067	1.3606	0.960	0.549
EKG	QTc dispersion, calculated as rate-corrected QT dispersion	6.6798	9.2968	1.4823	0.931	0.478
EKG	root mean square of successive differences of neighboring RR intervals	1.2773	4.4707	0.78771	0.950	0.777
glucose tolerance test	amount glucose injected	-3.3738	2.0339	-0.60985	0.624	0.239
glucose tolerance test	plasma glucose, 0min	4.4802	3.5420	0.22003	0.560	0.333
glucose tolerance test	plasma glucose, 15min	87.614	64.859	2.1614	0.639	0.309
glucose tolerance test	plasma glucose, 30min	73.621	65.648	1.9854	0.687	0.379
glucose tolerance test	plasma glucose, 60min	19.618	33.630	0.87375	0.848	0.619
glucose tolerance test	plasma glucose, 120min	34.117	46.492	1.8953	0.786	0.539
grip strength	body weight (at time of grip strength test)	0.32290	0.48223	0.52840	0.689	0.507
grip strength	forelimb and hindlimb grip strength (mean of trials), average	-10.686	8.4240	-0.51078	0.413	0.213
grip strength	forelimb and hindlimb grip strength (mean of trials), average normalized to bw	-0.33558	0.35365	-0.27953	0.557	0.349
grip strength	forelimb and hindlimb grip strength by trial, trial1	-4.1823	10.967	-0.058124	0.878	0.705
grip strength	forelimb and hindlimb grip strength by trial, trial2	-19.959	11.495	-1.0312	0.285	0.0913
grip strength	forelimb and hindlimb grip strength by trial, trial3	-7.1265	10.596	-0.26446	0.744	0.506
grip strength	forelimb grip strength (mean of trials), average	-5.0194	4.7721	-0.36057	0.567	0.300
grip strength	forelimb grip strength (mean of trials), average normalized to bw	-0.23936	0.22256	-0.38391	0.567	0.290
grip strength	forelimb grip strength by trial, trial1	-2.6090	6.3790	-0.036315	0.871	0.685
grip strength	forelimb grip strength by trial, trial2	-5.2616	6.3087	-0.36212	0.726	0.410
grip strength	forelimb grip strength by trial, trial3	-4.5880	6.5088	-0.25095	0.761	0.485
heart weight	heart weight, normalized to body weight	-0.10128	0.19843	-0.83394	0.776	0.614
heart weight	heart weight, weight	-0.48425	5.2227	-0.42826	0.961	0.927
hematology	basophil differential (percent of total WBC)	0.020787	0.029249	0.34002	0.817	0.486
hematology	calculated hemoglobin (cHGB)	0.65735	0.27140	1.6523	0.161	0.0262
hematology	eosinophil differential (percent of total WBC)	0.25015	0.63849	0.77452	0.903	0.700
hematology	hematocrit (HCT)	1.9731	0.59067	1.6025	0.0578	0.00344
hematology	hemoglobin concentration distribution width (HDW)	0.036397	0.022082	0.97113	0.388	0.117
hematology	large unstained cells (percent of total WBC)	-0.12022	0.040984	-0.79453	0.150	0.00853
hematology	lymphocyte differential (percent of total WBC)	-1.3621	1.8699	-0.62969	0.693	0.476
hematology	mean corpuscular hemoglobin (CHr)	-0.13498	0.065213	-1.0700	0.187	0.0531
hematology	mean platelet volume (MPV)	0.46517	0.19234	1.6684	0.108	0.0258
hematology	mean RBC corpuscular hemoglobin (MCH)	-0.076079	0.17569	-0.32162	0.860	0.670
hematology	mean RBC corpuscular hemoglobin concentration (MCHC)	0.40179	0.54225	0.83190	0.779	0.468
hematology	mean RBC corpuscular volume (MCV)	-0.68730	0.35973	-1.1405	0.214	0.0721
hematology	measured hemoglobin (mHGB)	0.87643	0.35286	1.8273	0.184	0.0225
hematology	monocyte differential (percent of total WBC)	0.51516	0.18644	1.5735	0.184	0.0128
hematology	neutrophil differential (percent of total WBC)	2.0848	0.93090	1.0343	0.181	0.0373
hematology	platelet count (PLT; units per volume x 10³)	122.46	92.969	1.5504	0.573	0.204
hematology	RBC corpuscular distribution width (RDW)	-0.065232	0.15534	-0.22739	0.836	0.680
hematology	RBC corpuscular hemoglobin concentration mean (CHCM)	-0.17855	0.35471	-0.53040	0.815	0.620
hematology	red blood cell count (RBC; per volume x 10⁶)	0.66119	0.16794	2.1219	0.0208	0.000884
hematology	reticulocyte count (Retic; units per volume x 10⁹)	41.036	15.336	1.5951	0.223	0.0154
hematology	reticulocyte differential (percent of total RBC)	0.19455	0.073686	0.96782	0.217	0.0161
hematology	white blood cell count (WBC; units per volume x 10³)	-0.88418	0.49004	-0.44326	0.236	0.0879
holeboard	number of hole pokes by individual hole number, 20 min test, 1	0.75896	0.74616	0.77607	0.739	0.315
holeboard	number of hole pokes by individual hole number, 20 min test, 2	0.23733	0.50747	0.48509	0.908	0.643
holeboard	number of hole pokes by individual hole number, 20 min test, 3	0.58609	0.47504	0.97418	0.734	0.225
holeboard	number of hole pokes by individual hole number, 20 min test, 4	1.1939	0.63281	1.2242	0.485	0.0665
holeboard	number of hole pokes by individual hole number, 20 min test, 5	0.81349	0.42765	1.3149	0.570	0.0645
holeboard	number of hole pokes by individual hole number, 20 min test, 6	0.058952	0.29961	0.21589	0.974	0.845
holeboard	number of hole pokes by individual hole number, 20 min test, 7	0.52548	0.32330	1.3141	0.731	0.112
holeboard	number of hole pokes by individual hole number, 20 min test, 8	0.27615	0.45575	0.59650	0.892	0.548
holeboard	number of hole pokes by individual hole number, 20 min test, 9	-0.0051434	0.38108	0.10492	0.994	0.989
holeboard	number of hole pokes by individual hole number, 20 min test, 10	0.45955	0.28363	1.1381	0.711	0.113
holeboard	number of hole pokes by individual hole number, 20 min test, 11	0.26604	0.26322	0.66603	0.810	0.318
holeboard	number of hole pokes by individual hole number, 20 min test, 12	0.62235	0.43487	1.0684	0.616	0.160
holeboard	number of hole pokes by individual hole number, 20 min test, 13	0.82097	0.66929	0.87626	0.663	0.227
holeboard	number of hole pokes by individual hole number, 20 min test, 14	0.56173	0.48754	0.91660	0.693	0.256
holeboard	number of hole pokes by individual hole number, 20 min test, 15	0.39048	0.53425	0.68405	0.846	0.469
holeboard	number of hole pokes by individual hole number, 20 min test, 16	0.91299	1.0580	0.82302	0.752	0.393
holeboard	total number of hole pokes, 20 min test	8.3191	3.4910	1.1430	0.161	0.0220
light / dark	fecal boli count, 20 min test	0.30339	0.77089	0.36487	0.914	0.697
light / dark	latency to enter dark zone, 20 min test	-60.826	48.501	-1.2437	0.645	0.217
light / dark	number of transitions between light and dark zones, 20 min test	-11.946	7.5580	-1.0988	0.420	0.122
light / dark	percentage of total time in dark zone, 20 min test	0.00095847	3.8472	0.13016	1.00	1.00
light / dark	percentage of total time in light zone, 20 min test	-0.00095847	3.8472	-0.13698	1.00	1.00
light / dark	time mobile in dark zone, 20 min test	2.2921	12.825	0.056815	0.947	0.859
light / dark	time mobile in light zone, 20 min test	0.15461	16.452	-0.22913	0.996	0.993
light / dark	time spent in dark zone, 20 min test	61.367	58.232	1.1602	0.700	0.298
light / dark	time spent in light zone, 20 min test	-61.367	58.232	-1.1602	0.700	0.298
open field	average speed in center of arena, 20 min test	0.61746	0.39266	0.95924	0.439	0.124
open field	average speed in periphery of arena, 20 min test	0.35799	0.16490	0.82717	0.135	0.0358
open field	distance traveled habituation ratio, 20 min test	-2.2831	9.3629	-0.13805	0.924	0.809
open field	distance traveled in center of arena, 20 min test	68.894	113.78	0.093446	0.748	0.548
open field	distance traveled in periphery of arena, 20 min test	340.81	170.17	0.86754	0.194	0.0519
open field	distance traveled slope, 20 min test	-2.0885	8.8690	-0.11775	0.940	0.815
open field	distance traveled, 20 min test, 1st 5min	150.46	89.540	0.80841	0.292	0.100
open field	distance traveled, 20 min test, 2nd 5min	102.12	61.476	0.61458	0.295	0.104
open field	distance traveled, 20 min test, 3rd 5min	101.13	54.036	0.65898	0.235	0.0684
open field	distance traveled, 20 min test, 4th 5min	129.92	69.126	0.95287	0.236	0.0673
open field	number of clockwise revolution episodes, 20 min test	2.6875	1.0959	1.0571	0.156	0.0185
open field	number of counter-clockwise revolution episodes, 20 min test	1.4000	1.5828	0.31882	0.661	0.382
open field	number of rears in 5 min bins, 20 min test, 1st 5min	5.2667	2.7910	1.1910	0.255	0.0663
open field	number of rears in 5 min bins, 20 min test, 2nd 5min	6.0785	2.6870	1.1805	0.167	0.0290
open field	number of rears in 5 min bins, 20 min test, 3rd 5min	6.0375	2.9457	1.0435	0.215	0.0468
open field	number of rears in 5 min bins, 20 min test, 4th 5min	5.3833	3.3479	0.83285	0.358	0.116
open field	percentage of total time in center of arena, 20 min test	-0.35409	2.2518	-0.28090	0.956	0.876
open field	percentage of total time in center of arena, slope, 20 min test	0.63508	0.90579	0.48339	0.854	0.487
open field	percentage of total time in center, habituation ratio, 20 min test	0.47413	0.94193	0.37443	0.896	0.617
open field	percentage of total time in corners of arena, 20 min test	2.0712	4.3364	0.67744	0.849	0.635
open field	percentage of total time in corners, habituation ratio, 20 min test	-1.0570	1.6153	-0.78262	0.877	0.517
open field	percentage of total time in corners, slope, 20 min test	-0.73421	1.6444	-0.63252	0.929	0.658
open field	permanence time in center of arena, 20 min test	-4.2434	27.017	-0.27810	0.955	0.876
open field	permanence time in corners of arena, 20 min test	24.852	52.039	0.67913	0.850	0.636
open field	permanence time in periphery of arena, 20 min test	4.2227	27.019	0.27810	0.956	0.877
open field	total distance traveled, 20 min test	483.64	223.38	0.85007	0.134	0.0363
open field	total number of rears, 20 min test	22.975	10.314	1.1995	0.153	0.0315
open field	whole arena average speed, 20 min test	0.40304	0.18607	0.84814	0.134	0.0362
open field	whole arena resting time, 20 min test	-34.262	20.976	-0.38887	0.270	0.110
open field	whole arena time spent mobile, 20 min test	34.358	20.982	0.64735	0.271	0.109
open field	whole arena time spent vertical, 20 min test	24.634	11.177	1.6162	0.215	0.0332

MULTIPLE (CATEGORICAL) TRAIT PROFILE PLOT — Early Adult Phenotyping study (EAP)

In this plot, data points are the computed genotype effect % vs. C57BL/6NJ controls, for all measured categorical phenotypes in JaxKOMP-EAP

Dimensions Width: × Height: px

Plot Options Group by Procedure

Include Sexes Data Both Females Males

Significance Threshold p-Value Threshold

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Procedure	JaxKOMP-EAP Trait	Sex	Trait Effect	P-value

eye morphology	anterior chamber depth	females	1.0 %	1.0
eye morphology	anterior chamber depth	males	0.0 %	1.0
eye morphology	anterior chamber depth	both	1.0 %	1.0
eye morphology	bulging eye	females	1.0 %	1.0
eye morphology	bulging eye	males	0.0 %	1.0
eye morphology	bulging eye	both	1.0 %	1.00
eye morphology	cornea	females	4.0 %	1.0
eye morphology	cornea	males	2.0 %	1.0
eye morphology	cornea	both	3.0 %	1.00
eye morphology	cornea opacity	females	20.0 %	0.0559
eye morphology	cornea opacity	males	1.0 %	1.0
eye morphology	cornea opacity	both	9.0 %	0.0962
eye morphology	cornea vascularization	females	3.0 %	1.0
eye morphology	cornea vascularization	males	1.0 %	1.0
eye morphology	cornea vascularization	both	2.0 %	1.00
eye morphology	corneal deposits	females	2.0 %	1.0
eye morphology	corneal deposits	males	1.0 %	1.0
eye morphology	corneal deposits	both	1.0 %	1.00
eye morphology	corneal mineralization	females	2.0 %	1.0
eye morphology	corneal mineralization	males	1.0 %	1.0
eye morphology	corneal mineralization	both	1.0 %	1.00
eye morphology	corneal scleralization	females	3.0 %	1.00
eye morphology	corneal scleralization	males	1.0 %	1.0
eye morphology	corneal scleralization	both	2.0 %	1.00
eye morphology	corneal ulcer	females	1.0 %	1.0
eye morphology	corneal ulcer	males	1.0 %	1.0
eye morphology	corneal ulcer	both	1.0 %	1.00
eye morphology	eye closure	females	1.0 %	1.00
eye morphology	eye closure	males	0.0 %	1.0
eye morphology	eye closure	both	1.0 %	1.0
eye morphology	eye hemorrhage or blood presence	females	2.0 %	1.00
eye morphology	eye hemorrhage or blood presence	males	1.0 %	1.0
eye morphology	eye hemorrhage or blood presence	both	1.0 %	1.00
eye morphology	eyelid morphology	females	1.0 %	1.0
eye morphology	eyelid morphology	males	0.0 %	1.0
eye morphology	eyelid morphology	both	1.0 %	1.0
eye morphology	eyes (present, absent)	females	1.0 %	1.0
eye morphology	eyes (present, absent)	males	0.0 %	1.0
eye morphology	eyes (present, absent)	both	0.0 %	1.0
eye morphology	fusion between cornea and lens	females	11.0 %	0.144
eye morphology	fusion between cornea and lens	males	2.0 %	1.0
eye morphology	fusion between cornea and lens	both	6.0 %	0.179
eye morphology	iris pigmentation	females	2.0 %	1.0
eye morphology	iris pigmentation	males	1.0 %	1.0
eye morphology	iris pigmentation	both	2.0 %	1.00
eye morphology	iris transillumination	females	2.0 %	1.00
eye morphology	iris transillumination	males	1.0 %	1.0
eye morphology	iris transillumination	both	1.0 %	1.00
eye morphology	irispupil	females	11.0 %	0.275
eye morphology	irispupil	males	3.0 %	1.0
eye morphology	irispupil	both	5.0 %	0.435
eye morphology	lacrimation	females	3.0 %	1.0
eye morphology	lacrimation	males	2.0 %	1.0
eye morphology	lacrimation	both	3.0 %	1.0
eye morphology	lens	females	11.0 %	0.276
eye morphology	lens	males	8.0 %	1.0
eye morphology	lens	both	6.0 %	0.317
eye morphology	lens opacity	females	28.0 %	0.0110
eye morphology	lens opacity	males	10.0 %	0.368
eye morphology	lens opacity	both	18.0 %	0.0113
eye morphology	narrow eye opening	females	12.0 %	0.171
eye morphology	narrow eye opening	males	1.0 %	1.0
eye morphology	narrow eye opening	both	6.0 %	0.144
eye morphology	optic disc	females	11.0 %	0.180
eye morphology	optic disc	males	2.0 %	1.0
eye morphology	optic disc	both	5.0 %	0.241
eye morphology	persistence of hyaloid vascular system	females	24.0 %	0.0722
eye morphology	persistence of hyaloid vascular system	males	11.0 %	0.333
eye morphology	persistence of hyaloid vascular system	both	16.0 %	0.0690
eye morphology	pupil dilation	females	2.0 %	1.0
eye morphology	pupil dilation	males	1.0 %	1.0
eye morphology	pupil dilation	both	2.0 %	1.0
eye morphology	pupil light response	females	2.0 %	1.00
eye morphology	pupil light response	males	1.0 %	1.0
eye morphology	pupil light response	both	2.0 %	1.00
eye morphology	pupil position	females	4.0 %	1.00
eye morphology	pupil position	males	3.0 %	1.0
eye morphology	pupil position	both	4.0 %	1.00
eye morphology	pupil shape	females	3.0 %	1.00
eye morphology	pupil shape	males	2.0 %	1.0
eye morphology	pupil shape	both	3.0 %	1.00
eye morphology	retina	females	11.0 %	0.288
eye morphology	retina	males	7.0 %	0.750
eye morphology	retina	both	6.0 %	0.330
eye morphology	retinal blood vessels	females	11.0 %	0.154
eye morphology	retinal blood vessels	males	2.0 %	1.0
eye morphology	retinal blood vessels	both	5.0 %	0.196
eye morphology	retinal blood vessels pattern	females	11.0 %	0.216
eye morphology	retinal blood vessels pattern	males	2.0 %	1.0
eye morphology	retinal blood vessels pattern	both	5.0 %	0.279
eye morphology	retinal blood vessels structure	females	11.0 %	0.165
eye morphology	retinal blood vessels structure	males	2.0 %	1.0
eye morphology	retinal blood vessels structure	both	5.0 %	0.215
eye morphology	retinal pigmentation	females	11.0 %	0.317
eye morphology	retinal pigmentation	males	14.0 %	1.0
eye morphology	retinal pigmentation	both	7.0 %	0.387
eye morphology	retinal structure	females	11.0 %	0.167
eye morphology	retinal structure	males	2.0 %	1.0
eye morphology	retinal structure	both	5.0 %	0.223
eye morphology	synechia	females	11.0 %	0.161
eye morphology	synechia	males	2.0 %	1.0
eye morphology	synechia	both	5.0 %	0.200
eye morphology	vitreous	females	11.0 %	0.152
eye morphology	vitreous	males	2.0 %	1.0
eye morphology	vitreous	both	5.0 %	0.189