MPD: Project measure / variable: Donahue1 skull

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Donahue1 - skull height

Measure Summary	Female	Male
Number of strains tested	29 strains	29 strains
Mean of the strain means	9.88 mm	9.98 mm
Median of the strain means	10.1 mm	10.1 mm
SD of the strain means	± 0.575	± 0.629
Coefficient of variation (CV)	0.0582	0.0630
Min–max range of strain means	8.73 – 10.8 mm	8.66 – 11.2 mm
Mean sample size per strain	9.5 mice	9.3 mice

ANOVA, Q-Q NORMALITY ASSESSMENT

ANOVA summary

Factor	DF	Sum of squares	Mean sum of squares	F value	p value (Pr>F)
sex	1	1.6552	1.6552	25.5664	< 0.0001
strain	28	179.3763	6.4063	98.9518	< 0.0001
sex:strain	28	3.6793	0.1314	2.0296	0.0016
Residuals	485	31.3996	0.0647

Q-Q normality assessment based on residuals

STRAIN MEANS (UNADJUSTED)

Strain	Sex	Mean	SD	N mice	SEM	CV	Min, Max	Z score
129S1/SvImJ	f	10.2	0.291	10	0.0921	0.0287	9.6, 10.6	0.56
129S1/SvImJ	m	10.5	0.218	10	0.069	0.0208	10.1, 10.8	0.83
A/J	f	9.64	0.267	10	0.0846	0.0277	9.3, 10.1	-0.42
A/J	m	9.8	0.159	8	0.0561	0.0162	9.43, 9.93	-0.29
AKR/J	f	10.4	0.217	10	0.0686	0.0208	10.2, 10.8	0.91
AKR/J	m	10.4	0.22	9	0.0735	0.0212	10.1, 10.8	0.67
BALB/cJ	f	10.2	0.14	10	0.0442	0.0137	10.0, 10.5	0.56
BALB/cJ	m	10.4	0.176	10	0.0558	0.017	10.2, 10.7	0.67
BTBR T⁺ Itpr3^tf/J	f	10.4	0.226	9	0.0752	0.0218	9.94, 10.7	0.91
BTBR T⁺ Itpr3^tf/J	m	10.6	0.353	10	0.112	0.0334	10.1, 11.2	0.99
BUB/BnJ	f	10.2	0.295	9	0.0982	0.0288	9.85, 10.6	0.56
BUB/BnJ	m	10.3	0.267	8	0.0944	0.0258	10.0, 10.7	0.51
C3H/HeJ	f	10.6	0.22	10	0.0696	0.0207	10.3, 10.9	1.26
C3H/HeJ	m	10.7	0.269	10	0.0849	0.0251	10.3, 11.1	1.15
C57BL/6J	f	10.2	0.307	10	0.0969	0.0302	9.82, 10.7	0.56
C57BL/6J	m	10.3	0.274	10	0.0865	0.0266	9.83, 10.7	0.51
C57L/J	f	10.1	0.2	10	0.0631	0.0198	9.84, 10.4	0.38
C57L/J	m	10.3	0.294	10	0.0928	0.0284	9.89, 10.8	0.51
C58/J	f	9.93	0.217	10	0.0687	0.0219	9.58, 10.3	0.09
C58/J	m	10.1	0.119	8	0.0422	0.0118	9.89, 10.3	0.19
CAST/EiJ	f	8.73	0.314	9	0.105	0.036	8.3, 9.2	-2.0
CAST/EiJ	m	8.66	0.194	9	0.0647	0.0224	8.45, 9.06	-2.1
CZECHII/EiJ	f	8.85	0.099	8	0.035	0.0112	8.72, 9.05	-1.79
CZECHII/EiJ	m	9.23	0.296	9	0.0986	0.032	8.85, 9.77	-1.19
DBA/2J	f	9.98	0.145	10	0.0458	0.0145	9.7, 10.1	0.18
DBA/2J	m	10.0	0.279	9	0.093	0.0278	9.55, 10.3	0.03
FVB/NJ	f	10.2	0.254	10	0.0803	0.0248	10.0, 10.9	0.56
FVB/NJ	m	10.3	0.221	10	0.0699	0.0214	9.92, 10.6	0.51
JF1/MsJ	f	9.39	0.446	9	0.149	0.0475	8.66, 10.0	-0.85
JF1/MsJ	m	9.17	0.291	9	0.097	0.0317	8.76, 9.72	-1.29
MOLF/EiJ	f	8.88	0.189	10	0.0598	0.0213	8.58, 9.2	-1.74
MOLF/EiJ	m	8.82	0.142	7	0.0538	0.0161	8.66, 9.0	-1.84
MSM/MsJ	f	9.02	0.151	8	0.0534	0.0167	8.79, 9.21	-1.5
MSM/MsJ	m	9.0	0.0952	7	0.036	0.0106	8.92, 9.17	-1.56
NOD/ShiLtJ	f	10.8	0.0949	10	0.03	0.00876	10.7, 11.0	1.6
NOD/ShiLtJ	m	11.2	0.389	10	0.123	0.0347	10.8, 11.9	1.94
NZB/BlNJ	f	10.5	0.148	10	0.0467	0.014	10.3, 10.7	1.08
NZB/BlNJ	m	10.9	0.329	10	0.104	0.0303	10.2, 11.3	1.46
NZW/LacJ	f	10.4	0.44	10	0.139	0.0423	9.62, 11.2	0.91
NZW/LacJ	m	10.5	0.298	10	0.0942	0.0284	9.99, 10.9	0.83
PERA/EiJ	f	9.82	0.18	8	0.0638	0.0184	9.5, 10.0	-0.1
PERA/EiJ	m	9.91	0.167	10	0.0527	0.0168	9.75, 10.2	-0.11
PL/J	f	10.5	0.255	10	0.0806	0.0244	10.1, 10.9	1.08
PL/J	m	10.4	0.183	9	0.0611	0.0176	10.2, 10.7	0.67
PWK/PhJ	f	9.34	0.206	7	0.0778	0.022	9.08, 9.59	-0.94
PWK/PhJ	m	9.54	0.235	9	0.0783	0.0246	9.25, 9.97	-0.7
SEA/GnJ	f	10.1	0.252	11	0.0761	0.0251	9.72, 10.6	0.38
SEA/GnJ	m	9.73	0.342	10	0.108	0.0352	9.33, 10.3	-0.4
SJL/J	f	9.76	0.219	10	0.0693	0.0224	9.36, 10.1	-0.21
SJL/J	m	9.81	0.205	10	0.0649	0.0209	9.47, 10.1	-0.27
SM/J	f	10.1	0.198	9	0.0661	0.0197	9.64, 10.3	0.38
SM/J	m	10.2	0.189	10	0.0596	0.0185	9.9, 10.4	0.35
SPRET/EiJ	f	9.03	0.21	7	0.0795	0.0233	8.81, 9.43	-1.48
SPRET/EiJ	m	9.27	0.435	10	0.138	0.047	8.74, 9.97	-1.13
SWR/J	f	9.73	0.191	10	0.0605	0.0197	9.49, 9.99	-0.26
SWR/J	m	9.77	0.167	10	0.0527	0.017	9.55, 10.0	-0.33
WSB/EiJ	f	9.49	0.372	10	0.118	0.0392	9.02, 10.1	-0.68
WSB/EiJ	m	9.6	0.24	8	0.0848	0.025	9.25, 9.92	-0.6

LEAST SQUARES MEANS (MODEL-ADJUSTED)

Strain	Sex	Mean	SEM	UpperCL	LowerCL
129S1/SvImJ	f	10.16	0.0805	10.3181	10.0019
129S1/SvImJ	m	10.49	0.0805	10.6481	10.3319
A/J	f	9.636	0.0805	9.7941	9.4779
A/J	m	9.8038	0.09	9.9805	9.627
AKR/J	f	10.44	0.0805	10.5981	10.2819
AKR/J	m	10.4111	0.0848	10.5778	10.2445
BALB/cJ	f	10.22	0.0805	10.3781	10.0619
BALB/cJ	m	10.4	0.0805	10.5581	10.2419
BTBR T⁺ Itpr3^tf/J	f	10.36	0.0848	10.5266	10.1934
BTBR T⁺ Itpr3^tf/J	m	10.57	0.0805	10.7281	10.4119
BUB/BnJ	f	10.2122	0.0848	10.3789	10.0456
BUB/BnJ	m	10.3375	0.09	10.5143	10.1607
C3H/HeJ	f	10.62	0.0805	10.7781	10.4619
C3H/HeJ	m	10.71	0.0805	10.8681	10.5519
C57BL/6J	f	10.152	0.0805	10.3101	9.9939
C57BL/6J	m	10.273	0.0805	10.4311	10.1149
C57L/J	f	10.07	0.0805	10.2281	9.9119
C57L/J	m	10.341	0.0805	10.4991	10.1829
C58/J	f	9.93	0.0805	10.0881	9.7719
C58/J	m	10.1237	0.09	10.3005	9.947
CAST/EiJ	f	8.7267	0.0848	8.8933	8.56
CAST/EiJ	m	8.6633	0.0848	8.83	8.4967
CZECHII/EiJ	f	8.85	0.09	9.0268	8.6732
CZECHII/EiJ	m	9.2289	0.0848	9.3955	9.0622
DBA/2J	f	9.985	0.0805	10.1431	9.8269
DBA/2J	m	10.0344	0.0848	10.2011	9.8678
FVB/NJ	f	10.23	0.0805	10.3881	10.0719
FVB/NJ	m	10.322	0.0805	10.4801	10.1639
JF1/MsJ	f	9.3867	0.0848	9.5533	9.22
JF1/MsJ	m	9.1656	0.0848	9.3322	8.9989
MOLF/EiJ	f	8.883	0.0805	9.0411	8.7249
MOLF/EiJ	m	8.8229	0.0962	9.0118	8.6339
MSM/MsJ	f	9.015	0.09	9.1918	8.8382
MSM/MsJ	m	9.0029	0.0962	9.1918	8.8139
NOD/ShiLtJ	f	10.83	0.0805	10.9881	10.6719
NOD/ShiLtJ	m	11.2	0.0805	11.3581	11.0419
NZB/BlNJ	f	10.52	0.0805	10.6781	10.3619
NZB/BlNJ	m	10.88	0.0805	11.0381	10.7219
NZW/LacJ	f	10.396	0.0805	10.5541	10.2379
NZW/LacJ	m	10.509	0.0805	10.6671	10.3509
PERA/EiJ	f	9.8238	0.09	10.0005	9.647
PERA/EiJ	m	9.911	0.0805	10.0691	9.7529
PL/J	f	10.45	0.0805	10.6081	10.2919
PL/J	m	10.4111	0.0848	10.5778	10.2445
PWK/PhJ	f	9.3357	0.0962	9.5247	9.1468
PWK/PhJ	m	9.5378	0.0848	9.7044	9.3711
SEA/GnJ	f	10.0645	0.0767	10.2153	9.9138
SEA/GnJ	m	9.726	0.0805	9.8841	9.5679
SJL/J	f	9.763	0.0805	9.9211	9.6049
SJL/J	m	9.815	0.0805	9.9731	9.6569
SM/J	f	10.0544	0.0848	10.2211	9.8878
SM/J	m	10.2	0.0805	10.3581	10.0419
SPRET/EiJ	f	9.0271	0.0962	9.2161	8.8382
SPRET/EiJ	m	9.269	0.0805	9.4271	9.1109
SWR/J	f	9.735	0.0805	9.8931	9.5769
SWR/J	m	9.772	0.0805	9.9301	9.6139
WSB/EiJ	f	9.489	0.0805	9.6471	9.3309
WSB/EiJ	m	9.6038	0.09	9.7805	9.427

LEAST SQUARES MEANS (MODEL-ADJUSTED), SEXES COMBINED

Strain	Sex	Mean	SEM	UpperCL	LowerCL
129S1/SvImJ	both	10.325	0.0569	10.4368	10.2132
A/J	both	9.7199	0.0603	9.8384	9.6013
AKR/J	both	10.4256	0.0585	10.5404	10.3107
BALB/cJ	both	10.31	0.0569	10.4218	10.1982
BTBR T⁺ Itpr3^tf/J	both	10.465	0.0585	10.5799	10.3501
BUB/BnJ	both	10.2749	0.0618	10.3963	10.1534
C3H/HeJ	both	10.665	0.0569	10.7768	10.5532
C57BL/6J	both	10.2125	0.0569	10.3243	10.1007
C57L/J	both	10.2055	0.0569	10.3173	10.0937
C58/J	both	10.0269	0.0603	10.1454	9.9083
CAST/EiJ	both	8.695	0.06	8.8128	8.5772
CZECHII/EiJ	both	9.0394	0.0618	9.1609	8.918
DBA/2J	both	10.0097	0.0585	10.1246	9.8949
FVB/NJ	both	10.276	0.0569	10.3878	10.1642
JF1/MsJ	both	9.2761	0.06	9.3939	9.1583
MOLF/EiJ	both	8.8529	0.0627	8.9761	8.7297
MSM/MsJ	both	9.0089	0.0658	9.1383	8.8796
NOD/ShiLtJ	both	11.015	0.0569	11.1268	10.9032
NZB/BlNJ	both	10.7	0.0569	10.8118	10.5882
NZW/LacJ	both	10.4525	0.0569	10.5643	10.3407
PERA/EiJ	both	9.8674	0.0603	9.9859	9.7488
PL/J	both	10.4306	0.0585	10.5454	10.3157
PWK/PhJ	both	9.4367	0.0641	9.5627	9.3108
SEA/GnJ	both	9.8953	0.0556	10.0045	9.7861
SJL/J	both	9.789	0.0569	9.9008	9.6772
SM/J	both	10.1272	0.0585	10.2421	10.0124
SPRET/EiJ	both	9.1481	0.0627	9.2713	9.0249
SWR/J	both	9.7535	0.0569	9.8653	9.6417
WSB/EiJ	both	9.5464	0.0603	9.6649	9.4278

INDIVIDUAL ANIMAL VALUES

Click here to view individual animal values

GWAS USING LINEAR MIXED MODELS

ID, description, units	MPD:11520 skull_height skull height [mm]
Data set, strains	Donahue1 inbred w/CC7 29 strains sex: both age: 15-16wks
Procedure	DXA
Ontology mappings	MA:0000316 cranium MP:0000428 abnormal craniofacial morphology MP:0002116 abnormal craniofacial bone morphology VT:0003104 skull size trait