Phenotype measure:   Wahlsten1   hc_index

ID, description, units MPD:10813   hc_index   hippocampal commissure index (0=absent, 1=normal, <0.5 is abnormal)   [score]
Data set, strains Wahlsten1   inbred   21 strains     sex: both     age: 12wks
Procedure histopathology
Ontology mappings

  STRAIN COMPARISON PLOT
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Wahlsten1 - hippocampal commissure index (0=absent, 1=normal, <0.5 is abnormal)



  MEASURE SUMMARY
Measure Summary FemaleMale
Number of strains tested21 strains20 strains
Mean of the strain means0.957   score 0.981   score
Median of the strain means0.932   score 1.00   score
SD of the strain means± 0.204 ± 0.164
Coefficient of variation (CV)0.213 0.167
Min–max range of strain means0.300   –   1.27   score 0.549   –   1.24   score
Mean sample size per strain9.5   mice 9.6   mice


  ANOVA, Q-Q NORMALITY ASSESSMENT
ANOVA summary      
FactorDFSum of squaresMean sum of squaresF valuep value (Pr>F)
sex 1 0.149 0.149 12.4776 0.0005
strain 19 13.0761 0.6882 57.6184 < 0.0001
sex:strain 19 0.4555 0.024 2.0073 0.0078
Residuals 345 4.1208 0.0119


Q-Q normality assessment based on residuals

  


  STRAIN MEANS (UNADJUSTED)
  
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Strain Sex Mean SD N mice SEM CV Min, Max Z score
129S1/SvImJ f 0.917 0.26   10 0.0824 0.284 0.464, 1.53 -0.2
129S1/SvImJ m 0.905 0.0826   10 0.0261 0.0912 0.749, 1.04 -0.47
A/J f 1.1 0.104   8 0.0369 0.0945 0.951, 1.27 0.7
A/J m 1.09 0.0729   10 0.0231 0.0669 1.01, 1.24 0.66
AKR/J f 0.911 0.0692   9 0.0231 0.0759 0.792, 1.02 -0.23
AKR/J m 0.903 0.103   8 0.0365 0.114 0.718, 1.09 -0.48
BALB/cByJ f 0.997 0.129   10 0.0406 0.129 0.827, 1.27 0.2
BALB/cByJ m 1.15 0.146   10 0.0462 0.126 0.999, 1.49 1.03
BTBR T+ Itpr3tf/J f 0.3 0.123   12 0.0356 0.411 0.105, 0.487 -3.23
BTBR T+ Itpr3tf/J m 0.549 0.309   6 0.126 0.563 0.128, 1.02 -2.64
C3H/HeJ f 1.24 0.104   10 0.0327 0.0838 1.12, 1.47 1.39
C3H/HeJ m 1.15 0.0798   8 0.0282 0.0692 1.02, 1.29 1.03
C57BL/6J f 0.932 0.0985   8 0.0348 0.106 0.823, 1.14 -0.12
C57BL/6J m 0.921 0.0838   10 0.0265 0.0911 0.806, 1.08 -0.37
C57L/J f 0.871 0.0711   10 0.0225 0.0816 0.769, 0.991 -0.42
C57L/J m 0.898 0.0658   8 0.0233 0.0733 0.839, 1.04 -0.51
C58/J f 0.988 0.12   9 0.0401 0.122 0.793, 1.21 0.15
C58/J m 1.01 0.154   10 0.0488 0.153 0.911, 1.44 0.18
CAST/EiJ f 1.09 0.0995   9 0.0332 0.0913 0.933, 1.27 0.65
CAST/EiJ m 1.08 0.102   9 0.0339 0.0942 0.891, 1.27 0.6
DBA/2J f 0.808 0.124   10 0.0393 0.154 0.58, 1.03 -0.73
DBA/2J m 0.839 0.0771   8 0.0272 0.0919 0.769, 1.0 -0.87
FVB/NJ f 0.929 0.0621   10 0.0197 0.0669 0.859, 1.03 -0.14
FVB/NJ m 0.947 0.0784   11 0.0237 0.0828 0.839, 1.11 -0.21
MOLF/EiJ f 0.922 0.0584   8 0.0207 0.0634 0.845, 1.01 -0.17
MOLF/EiJ m 1.01 0.0675   6 0.0276 0.0672 0.877, 1.06 0.18
NOD/ShiLtJ f 1.07 0.0971   12 0.028 0.0912 0.966, 1.31 0.55
NOD/ShiLtJ m 1.08 0.0654   12 0.0189 0.0604 0.986, 1.19 0.6
NZB/BlNJ f 0.947 0.04   6 0.0163 0.0422 0.879, 0.982 -0.05
NZB/BlNJ m 0.935 0.106   12 0.0307 0.114 0.778, 1.1 -0.28
PERA/EiJ f 0.712 0.0517   10 0.0163 0.0726 0.653, 0.815 -1.2
PERA/EiJ m 0.693 0.0916   12 0.0265 0.132 0.551, 0.832 -1.76
PL/J f 0.928 0.0674   12 0.0194 0.0726 0.85, 1.07 -0.14
PL/J m 0.996 0.0344   8 0.0122 0.0346 0.953, 1.07 0.09
SJL/J f 1.27 0.121   8 0.0427 0.0949 1.12, 1.49 1.54
SJL/J m 1.24 0.142   12 0.041 0.114 0.926, 1.41 1.58
SM/J f 1.1 0.0707   14 0.0189 0.0642 0.96, 1.19 0.7
SM/J m 1.13 0.0788   10 0.0249 0.0695 1.03, 1.25 0.91
SPRET/EiJ f 0.901 0.159   5 0.0711 0.176 0.671, 1.1 -0.28
SWR/J f 1.17 0.101   10 0.0318 0.0863 0.984, 1.35 1.04
SWR/J m 1.1 0.0875   10 0.0277 0.0793 0.986, 1.25 0.73


  LEAST SQUARES MEANS (MODEL-ADJUSTED)
Strain Sex Mean SEM UpperCL LowerCL
129S1/SvImJ f 0.9167 0.0346 0.9847 0.8487
129S1/SvImJ m 0.905 0.0346 0.973 0.837
A/J f 1.1049 0.0386 1.1809 1.0289
A/J m 1.091 0.0346 1.159 1.023
AKR/J f 0.9114 0.0364 0.9831 0.8398
AKR/J m 0.9029 0.0386 0.9789 0.8269
BALB/cByJ f 0.9972 0.0346 1.0652 0.9292
BALB/cByJ m 1.1549 0.0346 1.2229 1.0869
BTBR T+ Itpr3tf/J f 0.3003 0.0315 0.3623 0.2382
BTBR T+ Itpr3tf/J m 0.5487 0.0446 0.6364 0.4609
C3H/HeJ f 1.236 0.0346 1.304 1.168
C3H/HeJ m 1.1537 0.0386 1.2297 1.0778
C57BL/6J f 0.932 0.0386 1.008 0.856
C57BL/6J m 0.9206 0.0346 0.9886 0.8526
C57L/J f 0.8708 0.0346 0.9388 0.8028
C57L/J m 0.8981 0.0386 0.9741 0.8221
C58/J f 0.9883 0.0364 1.06 0.9167
C58/J m 1.0113 0.0346 1.0793 0.9433
CAST/EiJ f 1.0903 0.0364 1.162 1.0187
CAST/EiJ m 1.079 0.0364 1.1507 1.0073
DBA/2J f 0.8084 0.0346 0.8764 0.7404
DBA/2J m 0.8389 0.0386 0.9149 0.7629
FVB/NJ f 0.9286 0.0346 0.9966 0.8606
FVB/NJ m 0.9472 0.033 1.012 0.8824
MOLF/EiJ f 0.9221 0.0386 0.9981 0.8461
MOLF/EiJ m 1.0052 0.0446 1.0929 0.9174
NOD/ShiLtJ f 1.0652 0.0315 1.1272 1.0031
NOD/ShiLtJ m 1.083 0.0315 1.1451 1.0209
NZB/BlNJ f 0.9472 0.0446 1.0349 0.8594
NZB/BlNJ m 0.9345 0.0315 0.9966 0.8724
PERA/EiJ f 0.7118 0.0346 0.7798 0.6438
PERA/EiJ m 0.6934 0.0315 0.7555 0.6314
PL/J f 0.9278 0.0315 0.9899 0.8658
PL/J m 0.9957 0.0386 1.0717 0.9198
SJL/J f 1.2725 0.0386 1.3485 1.1965
SJL/J m 1.2447 0.0315 1.3067 1.1826
SM/J f 1.1007 0.0292 1.1582 1.0433
SM/J m 1.134 0.0346 1.202 1.066
SWR/J f 1.1654 0.0346 1.2334 1.0974
SWR/J m 1.1036 0.0346 1.1716 1.0356


  LEAST SQUARES MEANS (MODEL-ADJUSTED), SEXES COMBINED
Strain Sex Mean SEM UpperCL LowerCL
129S1/SvImJ both 0.9108 0.0244 0.9589 0.8628
A/J both 1.0979 0.0259 1.1489 1.047
AKR/J both 0.9072 0.0266 0.9594 0.8549
BALB/cByJ both 1.0761 0.0244 1.1241 1.028
BTBR T+ Itpr3tf/J both 0.4245 0.0273 0.4782 0.3707
C3H/HeJ both 1.1949 0.0259 1.2459 1.1439
C57BL/6J both 0.9263 0.0259 0.9773 0.8753
C57L/J both 0.8845 0.0259 0.9354 0.8335
C58/J both 0.9998 0.0251 1.0492 0.9504
CAST/EiJ both 1.0847 0.0258 1.1353 1.034
DBA/2J both 0.8236 0.0259 0.8746 0.7727
FVB/NJ both 0.9379 0.0239 0.9849 0.8909
MOLF/EiJ both 0.9636 0.0295 1.0217 0.9056
NOD/ShiLtJ both 1.0741 0.0223 1.118 1.0302
NZB/BlNJ both 0.9408 0.0273 0.9946 0.8871
PERA/EiJ both 0.7026 0.0234 0.7486 0.6566
PL/J both 0.9618 0.0249 1.0108 0.9127
SJL/J both 1.2586 0.0249 1.3076 1.2095
SM/J both 1.1174 0.0226 1.1619 1.0729
SWR/J both 1.1345 0.0244 1.1826 1.0864




  GWAS USING LINEAR MIXED MODELS