Phenotype measure:   Paigen1   smallLC

ID, description, units MPD:2912   smallLC   gallbladder, small liquid crystals (score: 0-4)   [score]   measure
high-fat diet study
Data set, strains Paigen1   inbred   43 strains     sex: both     age: 15-19wks
Procedure histopathology
Ontology mappings

  STRAIN COMPARISON PLOT
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Paigen1 - gallbladder, small liquid crystals (score: 0-4)



  MEASURE SUMMARY
Measure Summary FemaleMale
Number of strains tested43 strains42 strains
Mean of the strain means1.31   score 1.06   score
Median of the strain means1.17   score 1.02   score
SD of the strain means± 0.594 ± 0.405
Coefficient of variation (CV)0.453 0.383
Min–max range of strain means0.312   –   2.90   score 0.167   –   2.00   score
Mean sample size per strain8.8   mice 8.1   mice


  ANOVA, Q-Q NORMALITY ASSESSMENT
ANOVA summary      
FactorDFSum of squaresMean sum of squaresF valuep value (Pr>F)
sex 1 7.9258 7.9258 18.2724 < 0.0001
strain 41 139.2683 3.3968 7.8311 < 0.0001
sex:strain 41 43.5845 1.063 2.4508 < 0.0001
Residuals 623 270.2299 0.4338


Q-Q normality assessment based on residuals

  


  STRAIN MEANS (UNADJUSTED)
  
Select table page:
Strain Sex Mean SD N mice SEM CV Min, Max Z score
129S1/SvImJ f 0.65 0.474   10 0.15 0.73 0.5, 2.0 -1.11
129S1/SvImJ m 0.65 0.53   10 0.167 0.815 -1.01
A/J f 2.1 0.994   10 0.314 0.474 1.0, 4.0 1.33
A/J m 1.05 0.55   10 0.174 0.524 0.5, 2.0 -0.02
AKR/J f 1.22 0.618   9 0.206 0.506 0.5, 2.0 -0.15
AKR/J m 1.67 0.5   9 0.167 0.3 1.0, 2.0 1.51
BALB/cJ f 0.75 0.589   10 0.186 0.786 -0.94
BALB/cJ m 1.0 0.667   10 0.211 0.667 -0.14
BPH/2J f 1.45 0.864   10 0.273 0.596 0.5, 3.0 0.23
BPH/2J m 0.833 0.5   9 0.167 0.6 0.5, 2.0 -0.55
BPL/1J f 1.65 0.883   10 0.279 0.535 0.5, 3.0 0.57
BPL/1J m 1.45 0.599   10 0.189 0.413 0.5, 2.0 0.97
BPN/3J f 0.75 0.717   10 0.227 0.956 -0.94
BPN/3J m 1.0 0.612   9 0.204 0.612 0.5, 2.0 -0.14
BTBR T+ Itpr3tf/J f 1.0 0.0   3 0.0 0.0 1.0, 1.0 -0.52
BTBR T+ Itpr3tf/J m 1.25 0.717   10 0.227 0.573 0.47
C3H/HeJ f 2.22 0.833   9 0.278 0.375 1.0, 3.0 1.53
C3H/HeJ m 0.4 0.548   5 0.245 1.37 -1.62
C57BL/10J f 0.65 0.242   10 0.0764 0.372 0.5, 1.0 -1.11
C57BL/10J m 1.3 0.789   10 0.249 0.607 0.5, 3.0 0.6
C57BL/6J f 2.5 1.08   10 0.342 0.432 1.0, 4.0 2.0
C57BL/6J m 1.17 0.408   6 0.167 0.35 1.0, 2.0 0.28
C57BLKS/J f 1.08 0.492   6 0.201 0.454 0.5, 2.0 -0.39
C57BLKS/J m 1.2 0.447   5 0.2 0.373 1.0, 2.0 0.35
C57BR/cdJ f 1.56 0.726   9 0.242 0.467 1.0, 3.0 0.42
C57BR/cdJ m 0.95 0.438   10 0.138 0.461 0.5, 2.0 -0.27
C57L/J f 2.9 0.568   10 0.18 0.196 2.0, 4.0 2.68
C57L/J m 2.0 0.471   10 0.149 0.236 1.0, 3.0 2.32
C58/J f 2.05 1.23   10 0.391 0.602 0.5, 4.0 1.24
C58/J m 1.75 0.95   10 0.3 0.543 0.5, 3.0 1.71
CAST/EiJ f 0.9 0.652   5 0.292 0.724 0.5, 2.0 -0.69
CAST/EiJ m 0.833 0.791   9 0.264 0.949 -0.55
CBA/J f 1.67 0.707   9 0.236 0.424 1.0, 3.0 0.6
CBA/J m 1.45 0.762   10 0.241 0.525 0.5, 3.0 0.97
CE/J f 0.889 0.782   9 0.261 0.879 -0.71
CE/J m 0.583 0.204   6 0.0833 0.35 0.5, 1.0 -1.17
CZECHII/EiJ f 1.5 0.866   7 0.327 0.577 0.5, 3.0 0.32
CZECHII/EiJ m 1.29 0.488   7 0.184 0.38 1.0, 2.0 0.57
DBA/1J f 1.05 0.369   10 0.117 0.351 0.5, 2.0 -0.44
DBA/1J m 0.938 0.177   8 0.0625 0.189 0.5, 1.0 -0.3
DBA/2J f 0.35 0.412   10 0.13 1.18 -1.62
DBA/2J m 0.722 0.363   9 0.121 0.503 -0.83
FVB/NJ f 1.11 0.546   9 0.182 0.492 0.5, 2.0 -0.34
FVB/NJ m 0.5 0.5   3 0.289 1.0 -1.38
I/LnJ f 1.17 1.22   9 0.408 1.05 -0.24
I/LnJ m 1.67 0.707   9 0.236 0.424 1.0, 3.0 1.51
KK/HlJ f 1.0 0.0   8 0.0 0.0 1.0, 1.0 -0.52
KK/HlJ m 0.889 0.486   9 0.162 0.547 0.5, 2.0 -0.42
LP/J f 1.11 0.333   9 0.111 0.3 1.0, 2.0 -0.34
LP/J m 1.33 0.707   9 0.236 0.53 0.67
MOLF/EiJ f 1.33 0.707   9 0.236 0.53 0.03
MOLF/EiJ m 1.0 0.433   9 0.144 0.433 0.5, 2.0 -0.14
NOD/ShiLtJ f 1.25 0.845   8 0.299 0.676 0.5, 3.0 -0.1
NOD/ShiLtJ m 1.25 0.612   6 0.25 0.49 0.5, 2.0 0.47
NON/ShiLtJ f 1.56 0.726   9 0.242 0.467 1.0, 3.0 0.42
NON/ShiLtJ m 1.22 0.833   9 0.278 0.682 0.4
NZB/BlNJ f 1.89 0.782   9 0.261 0.414 1.0, 3.0 0.98
NZB/BlNJ m 1.61 0.928   9 0.309 0.576 0.5, 3.0 1.36
NZW/LacJ f 2.25 0.707   8 0.25 0.314 1.0, 3.0 1.58
NZW/LacJ m 1.5 0.527   10 0.167 0.351 1.0, 2.0 1.09
PERA/EiJ f 0.312 0.458   8 0.162 1.47 -1.68
PERA/EiJ m 0.375 0.25   4 0.125 0.667 -1.68
P/J f 1.56 0.527   9 0.176 0.339 1.0, 2.0 0.42
P/J m 1.11 0.928   9 0.309 0.835 0.13
PL/J f 1.0 0.577   10 0.183 0.577 0.5, 2.0 -0.52
PL/J m 0.167 0.289   3 0.167 1.73 -2.2
RBF/DnJ f 1.06 0.391   9 0.13 0.37 0.5, 2.0 -0.42
RBF/DnJ m 0.778 0.264   9 0.0878 0.339 0.5, 1.0 -0.69
RF/J f 0.7 0.789   10 0.249 1.13 -1.03
RF/J m 0.8 0.274   5 0.122 0.342 0.5, 1.0 -0.64
RIIIS/J f 1.9 0.738   10 0.233 0.388 1.0, 3.0 0.99
RIIIS/J m 1.0 0.433   9 0.144 0.433 0.5, 2.0 -0.14
SEA/GnJ f 2.12 0.835   8 0.295 0.393 1.0, 3.0 1.36
SEA/GnJ m 1.4 0.516   10 0.163 0.369 1.0, 2.0 0.84
SJL/J f 0.7 0.422   10 0.133 0.602 -1.03
SJL/J m 0.944 0.464   9 0.155 0.491 0.5, 2.0 -0.28
SM/J f 0.429 0.45   7 0.17 1.05 -1.49
SM/J m 0.6 0.224   5 0.1 0.373 0.5, 1.0 -1.13
SPRET/EiJ f 1.14 0.378   7 0.143 0.331 1.0, 2.0 -0.29
SPRET/EiJ m 0.5 0.5   5 0.224 1.0 -1.38
SWR/J f 1.7 0.675   10 0.213 0.397 1.0, 3.0 0.66
SWR/J m 1.12 0.641   8 0.227 0.57 0.15
WSB/EiJ f 1.19 0.704   8 0.249 0.593 0.5, 2.0 -0.2
WSB/EiJ m 1.17 0.753   6 0.307 0.645 0.28
YBR/EiJ f 1.0 0.0   3 0.0 0.0 1.0, 1.0 -0.52


  LEAST SQUARES MEANS (MODEL-ADJUSTED)
Strain Sex Mean SEM UpperCL LowerCL
129S1/SvImJ f 0.65 0.2083 1.059 0.241
129S1/SvImJ m 0.65 0.2083 1.059 0.241
A/J f 2.1 0.2083 2.509 1.691
A/J m 1.05 0.2083 1.459 0.641
AKR/J f 1.2222 0.2195 1.6533 0.7911
AKR/J m 1.6667 0.2195 2.0978 1.2356
BALB/cJ f 0.75 0.2083 1.159 0.341
BALB/cJ m 1.0 0.2083 1.409 0.591
BPH/2J f 1.45 0.2083 1.859 1.041
BPH/2J m 0.8333 0.2195 1.2644 0.4022
BPL/1J f 1.65 0.2083 2.059 1.241
BPL/1J m 1.45 0.2083 1.859 1.041
BPN/3J f 0.75 0.2083 1.159 0.341
BPN/3J m 1.0 0.2195 1.4311 0.5689
BTBR T+ Itpr3tf/J f 1.0 0.3802 1.7467 0.2533
BTBR T+ Itpr3tf/J m 1.25 0.2083 1.659 0.841
C3H/HeJ f 2.2222 0.2195 2.6533 1.7911
C3H/HeJ m 0.4 0.2945 0.9784 0.0
C57BL/10J f 0.65 0.2083 1.059 0.241
C57BL/10J m 1.3 0.2083 1.709 0.891
C57BL/6J f 2.5 0.2083 2.909 2.091
C57BL/6J m 1.1667 0.2689 1.6947 0.6387
C57BLKS/J f 1.0833 0.2689 1.6113 0.5553
C57BLKS/J m 1.2 0.2945 1.7784 0.6216
C57BR/cdJ f 1.5556 0.2195 1.9867 1.1244
C57BR/cdJ m 0.95 0.2083 1.359 0.541
C57L/J f 2.9 0.2083 3.309 2.491
C57L/J m 2.0 0.2083 2.409 1.591
C58/J f 2.05 0.2083 2.459 1.641
C58/J m 1.75 0.2083 2.159 1.341
CAST/EiJ f 0.9 0.2945 1.4784 0.3216
CAST/EiJ m 0.8333 0.2195 1.2644 0.4022
CBA/J f 1.6667 0.2195 2.0978 1.2356
CBA/J m 1.45 0.2083 1.859 1.041
CE/J f 0.8889 0.2195 1.32 0.4578
CE/J m 0.5833 0.2689 1.1113 0.0553
CZECHII/EiJ f 1.5 0.2489 1.9888 1.0112
CZECHII/EiJ m 1.2857 0.2489 1.7746 0.7969
DBA/1J f 1.05 0.2083 1.459 0.641
DBA/1J m 0.9375 0.2329 1.3948 0.4802
DBA/2J f 0.35 0.2083 0.759 0.0
DBA/2J m 0.7222 0.2195 1.1533 0.2911
FVB/NJ f 1.1111 0.2195 1.5422 0.68
FVB/NJ m 0.5 0.3802 1.2467 0.0
I/LnJ f 1.1667 0.2195 1.5978 0.7356
I/LnJ m 1.6667 0.2195 2.0978 1.2356
KK/HlJ f 1.0 0.2329 1.4573 0.5427
KK/HlJ m 0.8889 0.2195 1.32 0.4578
LP/J f 1.1111 0.2195 1.5422 0.68
LP/J m 1.3333 0.2195 1.7644 0.9022
MOLF/EiJ f 1.3333 0.2195 1.7644 0.9022
MOLF/EiJ m 1.0 0.2195 1.4311 0.5689
NOD/ShiLtJ f 1.25 0.2329 1.7073 0.7927
NOD/ShiLtJ m 1.25 0.2689 1.778 0.722
NON/ShiLtJ f 1.5556 0.2195 1.9867 1.1244
NON/ShiLtJ m 1.2222 0.2195 1.6533 0.7911
NZB/BlNJ f 1.8889 0.2195 2.32 1.4578
NZB/BlNJ m 1.6111 0.2195 2.0422 1.18
NZW/LacJ f 2.25 0.2329 2.7073 1.7927
NZW/LacJ m 1.5 0.2083 1.909 1.091
PERA/EiJ f 0.3125 0.2329 0.7698 0.0
PERA/EiJ m 0.375 0.3293 1.0217 0.0
P/J f 1.5556 0.2195 1.9867 1.1244
P/J m 1.1111 0.2195 1.5422 0.68
PL/J f 1.0 0.2083 1.409 0.591
PL/J m 0.1667 0.3802 0.9134 0.0
RBF/DnJ f 1.0556 0.2195 1.4867 0.6244
RBF/DnJ m 0.7778 0.2195 1.2089 0.3467
RF/J f 0.7 0.2083 1.109 0.291
RF/J m 0.8 0.2945 1.3784 0.2216
RIIIS/J f 1.9 0.2083 2.309 1.491
RIIIS/J m 1.0 0.2195 1.4311 0.5689
SEA/GnJ f 2.125 0.2329 2.5823 1.6677
SEA/GnJ m 1.4 0.2083 1.809 0.991
SJL/J f 0.7 0.2083 1.109 0.291
SJL/J m 0.9444 0.2195 1.3756 0.5133
SM/J f 0.4286 0.2489 0.9174 0.0
SM/J m 0.6 0.2945 1.1784 0.0216
SPRET/EiJ f 1.1429 0.2489 1.6317 0.654
SPRET/EiJ m 0.5 0.2945 1.0784 0.0
SWR/J f 1.7 0.2083 2.109 1.291
SWR/J m 1.125 0.2329 1.5823 0.6677
WSB/EiJ f 1.1875 0.2329 1.6448 0.7302
WSB/EiJ m 1.1667 0.2689 1.6947 0.6387


  LEAST SQUARES MEANS (MODEL-ADJUSTED), SEXES COMBINED
Strain Sex Mean SEM UpperCL LowerCL
129S1/SvImJ both 0.65 0.1473 0.9392 0.3608
A/J both 1.575 0.1473 1.8642 1.2858
AKR/J both 1.4444 0.1552 1.7493 1.1396
BALB/cJ both 0.875 0.1473 1.1642 0.5858
BPH/2J both 1.1417 0.1513 1.4388 0.8445
BPL/1J both 1.55 0.1473 1.8392 1.2608
BPN/3J both 0.875 0.1513 1.1721 0.5779
BTBR T+ Itpr3tf/J both 1.125 0.2168 1.5507 0.6993
C3H/HeJ both 1.3111 0.1837 1.6718 0.9504
C57BL/10J both 0.975 0.1473 1.2642 0.6858
C57BL/6J both 1.8333 0.1701 2.1673 1.4994
C57BLKS/J both 1.1417 0.1994 1.5332 0.7501
C57BR/cdJ both 1.2528 0.1513 1.5499 0.9557
C57L/J both 2.45 0.1473 2.7392 2.1608
C58/J both 1.9 0.1473 2.1892 1.6108
CAST/EiJ both 0.8667 0.1837 1.2274 0.506
CBA/J both 1.5583 0.1513 1.8555 1.2612
CE/J both 0.7361 0.1736 1.0769 0.3953
CZECHII/EiJ both 1.3929 0.176 1.7385 1.0472
DBA/1J both 0.9938 0.1562 1.3005 0.687
DBA/2J both 0.5361 0.1513 0.8332 0.239
FVB/NJ both 0.8056 0.2195 1.2367 0.3744
I/LnJ both 1.4167 0.1552 1.7215 1.1118
KK/HlJ both 0.9444 0.16 1.2587 0.6302
LP/J both 1.2222 0.1552 1.5271 0.9174
MOLF/EiJ both 1.1667 0.1552 1.4715 0.8618
NOD/ShiLtJ both 1.25 0.1778 1.5992 0.9008
NON/ShiLtJ both 1.3889 0.1552 1.6937 1.084
NZB/BlNJ both 1.75 0.1552 2.0548 1.4452
NZW/LacJ both 1.875 0.1562 2.1817 1.5683
PERA/EiJ both 0.3438 0.2017 0.7398 0.0
P/J both 1.3333 0.1552 1.6382 1.0285
PL/J both 0.5833 0.2168 1.009 0.1576
RBF/DnJ both 0.9167 0.1552 1.2215 0.6118
RF/J both 0.75 0.1804 1.1042 0.3958
RIIIS/J both 1.45 0.1513 1.7471 1.1529
SEA/GnJ both 1.7625 0.1562 2.0692 1.4558
SJL/J both 0.8222 0.1513 1.1193 0.5251
SM/J both 0.5143 0.1928 0.8929 0.1356
SPRET/EiJ both 0.8214 0.1928 1.2001 0.4428
SWR/J both 1.4125 0.1562 1.7192 1.1058
WSB/EiJ both 1.1771 0.1778 1.5263 0.8278




  GWAS USING LINEAR MIXED MODELS