Phenotype measure:   Paigen1   sandysto

ID, description, units MPD:2916   sandysto   gallbladder, number of sandy stones   [n]
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, number of sandy stones



  MEASURE SUMMARY
Measure Summary FemaleMale
Number of strains tested43 strains42 strains
Mean of the strain means0.723   n 2.27   n
Median of the strain means0   n 0.400   n
SD of the strain means± 1.91 ± 4.65
Coefficient of variation (CV)2.64 2.05
Min–max range of strain means0   –   10.1   n 0   –   23.6   n
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 1 362.6482 362.6482 8.1427 0.0045
strain 41 5626.1829 137.224 3.0811 < 0.0001
sex:strain 41 3238.9392 78.9985 1.7738 0.0026
Residuals 624 27790.9698 44.5368


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 0.0 0.0   10 0.0 0.0 -0.38
129S1/SvImJ m 0.0 0.0   10 0.0 0.0 -0.49
A/J f 1.0 3.16   10 1.0 3.16 0.15
A/J m 1.0 3.16   10 1.0 3.16 -0.27
AKR/J f 0.0 0.0   9 0.0 0.0 -0.38
AKR/J m 0.0 0.0   9 0.0 0.0 -0.49
BALB/cJ f 0.0 0.0   10 0.0 0.0 -0.38
BALB/cJ m 1.0 1.63   10 0.516 1.63 -0.27
BPH/2J f 0.3 0.949   10 0.3 3.16 -0.22
BPH/2J m 0.0 0.0   9 0.0 0.0 -0.49
BPL/1J f 1.5 4.74   10 1.5 3.16 0.41
BPL/1J m 0.0 0.0   10 0.0 0.0 -0.49
BPN/3J f 0.0 0.0   10 0.0 0.0 -0.38
BPN/3J m 0.222 0.667   9 0.222 3.0 -0.44
BTBR T+ Itpr3tf/J f 0.0 0.0   3 0.0 0.0 -0.38
BTBR T+ Itpr3tf/J m 0.0 0.0   10 0.0 0.0 -0.49
C3H/HeJ f 0.0 0.0   9 0.0 0.0 -0.38
C3H/HeJ m 6.2 8.79   5 3.93 1.42 0.85
C57BL/10J f 0.4 1.26   10 0.4 3.16 -0.17
C57BL/10J m 23.6 40.5   10 12.8 1.71 4.59
C57BL/6J f 0.2 0.632   10 0.2 3.16 -0.27
C57BL/6J m 2.17 2.56   6 1.05 1.18 -0.02
C57BLKS/J f 0.0 0.0   6 0.0 0.0 -0.38
C57BLKS/J m 0.4 0.548   5 0.245 1.37 -0.4
C57BR/cdJ f 0.0 0.0   9 0.0 0.0 -0.38
C57BR/cdJ m 1.0 3.16   10 1.0 3.16 -0.27
C57L/J f 1.5 1.72   10 0.543 1.14 0.41
C57L/J m 4.0 3.02   10 0.955 0.755 0.37
C58/J f 6.9 7.08   10 2.24 1.03 3.24
C58/J m 7.6 9.16   10 2.9 1.2 1.15
CAST/EiJ f 0.0 0.0   5 0.0 0.0 -0.38
CAST/EiJ m 12.1 33.0   9 11.0 2.72 2.11
CBA/J f 0.0 0.0   9 0.0 0.0 -0.38
CBA/J m 0.0 0.0   10 0.0 0.0 -0.49
CE/J f 0.0 0.0   9 0.0 0.0 -0.38
CE/J m 0.0 0.0   6 0.0 0.0 -0.49
CZECHII/EiJ f 0.0 0.0   7 0.0 0.0 -0.38
CZECHII/EiJ m 0.571 1.51   7 0.571 2.65 -0.37
DBA/1J f 0.0 0.0   10 0.0 0.0 -0.38
DBA/1J m 0.0 0.0   8 0.0 0.0 -0.49
DBA/2J f 0.0 0.0   10 0.0 0.0 -0.38
DBA/2J m 0.0 0.0   9 0.0 0.0 -0.49
FVB/NJ f 0.0 0.0   9 0.0 0.0 -0.38
FVB/NJ m 7.0 7.21   3 4.16 1.03 1.0, 15.0 1.02
I/LnJ f 0.0 0.0   9 0.0 0.0 -0.38
I/LnJ m 0.0 0.0   9 0.0 0.0 -0.49
KK/HlJ f 0.0 0.0   8 0.0 0.0 -0.38
KK/HlJ m 0.0 0.0   9 0.0 0.0 -0.49
LP/J f 0.111 0.333   9 0.111 3.0 -0.32
LP/J m 0.111 0.333   9 0.111 3.0 -0.46
MOLF/EiJ f 1.0 1.66   9 0.553 1.66 0.15
MOLF/EiJ m 0.556 1.13   9 0.377 2.03 -0.37
NOD/ShiLtJ f 3.75 5.73   8 2.02 1.53 1.59
NOD/ShiLtJ m 5.5 12.1   6 4.92 2.19 0.69
NON/ShiLtJ f 0.0 0.0   9 0.0 0.0 -0.38
NON/ShiLtJ m 0.4 1.26   10 0.4 3.16 -0.4
NZB/BlNJ f 0.0 0.0   9 0.0 0.0 -0.38
NZB/BlNJ m 0.0 0.0   9 0.0 0.0 -0.49
NZW/LacJ f 0.0 0.0   8 0.0 0.0 -0.38
NZW/LacJ m 1.3 3.2   10 1.01 2.46 -0.21
PERA/EiJ f 10.1 7.57   8 2.68 0.747 3.0, 23.0 4.92
PERA/EiJ m 12.8 6.55   4 3.28 0.514 3.0, 17.0 2.27
P/J f 0.0 0.0   9 0.0 0.0 -0.38
P/J m 0.556 1.67   9 0.556 3.0 -0.37
PL/J f 0.1 0.316   10 0.1 3.16 -0.33
PL/J m 0.0 0.0   3 0.0 0.0 -0.49
RBF/DnJ f 0.333 1.0   9 0.333 3.0 -0.2
RBF/DnJ m 0.0 0.0   9 0.0 0.0 -0.49
RF/J f 0.2 0.632   10 0.2 3.16 -0.27
RF/J m 0.0 0.0   5 0.0 0.0 -0.49
RIIIS/J f 1.0 0.816   10 0.258 0.816 0.15
RIIIS/J m 5.67 5.98   9 1.99 1.06 1.0, 20.0 0.73
SEA/GnJ f 0.0 0.0   8 0.0 0.0 -0.38
SEA/GnJ m 0.4 1.26   10 0.4 3.16 -0.4
SJL/J f 0.4 0.843   10 0.267 2.11 -0.17
SJL/J m 0.444 1.33   9 0.444 3.0 -0.39
SM/J f 0.0 0.0   7 0.0 0.0 -0.38
SM/J m 0.0 0.0   5 0.0 0.0 -0.49
SPRET/EiJ f 0.0 0.0   7 0.0 0.0 -0.38
SPRET/EiJ m 0.0 0.0   5 0.0 0.0 -0.49
SWR/J f 1.8 2.15   10 0.68 1.19 0.56
SWR/J m 0.625 1.19   8 0.42 1.9 -0.35
WSB/EiJ f 0.5 1.07   8 0.378 2.14 -0.12
WSB/EiJ m 0.167 0.408   6 0.167 2.45 -0.45
YBR/EiJ f 0.0 0.0   3 0.0 0.0 -0.38


  LEAST SQUARES MEANS (MODEL-ADJUSTED)
Strain Sex Mean SEM UpperCL LowerCL
129S1/SvImJ f 0.0 2.1104 4.1443 -4.1443
129S1/SvImJ m 0.0 2.1104 4.1443 -4.1443
A/J f 1.0 2.1104 5.1443 -3.1443
A/J m 1.0 2.1104 5.1443 -3.1443
AKR/J f 0.0 2.2245 4.3685 -4.3685
AKR/J m 0.0 2.2245 4.3685 -4.3685
BALB/cJ f 0.0 2.1104 4.1443 -4.1443
BALB/cJ m 1.0 2.1104 5.1443 -3.1443
BPH/2J f 0.3 2.1104 4.4443 -3.8443
BPH/2J m 0.0 2.2245 4.3685 -4.3685
BPL/1J f 1.5 2.1104 5.6443 -2.6443
BPL/1J m 0.0 2.1104 4.1443 -4.1443
BPN/3J f 0.0 2.1104 4.1443 -4.1443
BPN/3J m 0.2222 2.2245 4.5907 -4.1462
BTBR T+ Itpr3tf/J f 0.0 3.853 7.5664 -7.5664
BTBR T+ Itpr3tf/J m 0.0 2.1104 4.1443 -4.1443
C3H/HeJ f 0.0 2.2245 4.3685 -4.3685
C3H/HeJ m 6.2 2.9845 12.0609 0.3391
C57BL/10J f 0.4 2.1104 4.5443 -3.7443
C57BL/10J m 23.6 2.1104 27.7443 19.4557
C57BL/6J f 0.2 2.1104 4.3443 -3.9443
C57BL/6J m 2.1667 2.7245 7.5169 -3.1836
C57BLKS/J f 0.0 2.7245 5.3503 -5.3503
C57BLKS/J m 0.4 2.9845 6.2609 -5.4609
C57BR/cdJ f 0.0 2.2245 4.3685 -4.3685
C57BR/cdJ m 1.0 2.1104 5.1443 -3.1443
C57L/J f 1.5 2.1104 5.6443 -2.6443
C57L/J m 4.0 2.1104 8.1443 -0.1443
C58/J f 6.9 2.1104 11.0443 2.7557
C58/J m 7.6 2.1104 11.7443 3.4557
CAST/EiJ f 0.0 2.9845 5.8609 -5.8609
CAST/EiJ m 12.1111 2.2245 16.4796 7.7426
CBA/J f 0.0 2.2245 4.3685 -4.3685
CBA/J m 0.0 2.1104 4.1443 -4.1443
CE/J f 0.0 2.2245 4.3685 -4.3685
CE/J m 0.0 2.7245 5.3503 -5.3503
CZECHII/EiJ f 0.0 2.5224 4.9534 -4.9534
CZECHII/EiJ m 0.5714 2.5224 5.5248 -4.382
DBA/1J f 0.0 2.1104 4.1443 -4.1443
DBA/1J m 0.0 2.3595 4.6335 -4.6335
DBA/2J f 0.0 2.1104 4.1443 -4.1443
DBA/2J m 0.0 2.2245 4.3685 -4.3685
FVB/NJ f 0.0 2.2245 4.3685 -4.3685
FVB/NJ m 7.0 3.853 14.5664 -0.5664
I/LnJ f 0.0 2.2245 4.3685 -4.3685
I/LnJ m 0.0 2.2245 4.3685 -4.3685
KK/HlJ f 0.0 2.3595 4.6335 -4.6335
KK/HlJ m 0.0 2.2245 4.3685 -4.3685
LP/J f 0.1111 2.2245 4.4796 -4.2574
LP/J m 0.1111 2.2245 4.4796 -4.2574
MOLF/EiJ f 1.0 2.2245 5.3685 -3.3685
MOLF/EiJ m 0.5556 2.2245 4.924 -3.8129
NOD/ShiLtJ f 3.75 2.3595 8.3835 -0.8835
NOD/ShiLtJ m 5.5 2.7245 10.8503 0.1497
NON/ShiLtJ f 0.0 2.2245 4.3685 -4.3685
NON/ShiLtJ m 0.4 2.1104 4.5443 -3.7443
NZB/BlNJ f 0.0 2.2245 4.3685 -4.3685
NZB/BlNJ m 0.0 2.2245 4.3685 -4.3685
NZW/LacJ f 0.0 2.3595 4.6335 -4.6335
NZW/LacJ m 1.3 2.1104 5.4443 -2.8443
PERA/EiJ f 10.125 2.3595 14.7585 5.4915
PERA/EiJ m 12.75 3.3368 19.3027 6.1973
P/J f 0.0 2.2245 4.3685 -4.3685
P/J m 0.5556 2.2245 4.924 -3.8129
PL/J f 0.1 2.1104 4.2443 -4.0443
PL/J m 0.0 3.853 7.5664 -7.5664
RBF/DnJ f 0.3333 2.2245 4.7018 -4.0351
RBF/DnJ m 0.0 2.2245 4.3685 -4.3685
RF/J f 0.2 2.1104 4.3443 -3.9443
RF/J m 0.0 2.9845 5.8609 -5.8609
RIIIS/J f 1.0 2.1104 5.1443 -3.1443
RIIIS/J m 5.6667 2.2245 10.0351 1.2982
SEA/GnJ f 0.0 2.3595 4.6335 -4.6335
SEA/GnJ m 0.4 2.1104 4.5443 -3.7443
SJL/J f 0.4 2.1104 4.5443 -3.7443
SJL/J m 0.4444 2.2245 4.8129 -3.924
SM/J f 0.0 2.5224 4.9534 -4.9534
SM/J m 0.0 2.9845 5.8609 -5.8609
SPRET/EiJ f 0.0 2.5224 4.9534 -4.9534
SPRET/EiJ m 0.0 2.9845 5.8609 -5.8609
SWR/J f 1.8 2.1104 5.9443 -2.3443
SWR/J m 0.625 2.3595 5.2585 -4.0085
WSB/EiJ f 0.5 2.3595 5.1335 -4.1335
WSB/EiJ m 0.1667 2.7245 5.5169 -5.1836


  LEAST SQUARES MEANS (MODEL-ADJUSTED), SEXES COMBINED
Strain Sex Mean SEM UpperCL LowerCL
129S1/SvImJ both 0.0 1.4923 2.9305 -2.9305
A/J both 1.0 1.4923 3.9305 -1.9305
AKR/J both 0.0 1.573 3.089 -3.089
BALB/cJ both 0.5 1.4923 3.4305 -2.4305
BPH/2J both 0.15 1.5332 3.1608 -2.8608
BPL/1J both 0.75 1.4923 3.6805 -2.1805
BPN/3J both 0.1111 1.5332 3.1219 -2.8997
BTBR T+ Itpr3tf/J both 0.0 2.1965 4.3135 -4.3135
C3H/HeJ both 3.1 1.8612 6.7549 -0.5549
C57BL/10J both 12.0 1.4923 14.9305 9.0695
C57BL/6J both 1.1833 1.7231 4.5671 -2.2005
C57BLKS/J both 0.2 2.0205 4.1679 -3.7679
C57BR/cdJ both 0.5 1.5332 3.5108 -2.5108
C57L/J both 2.75 1.4923 5.6805 -0.1805
C58/J both 7.25 1.4923 10.1805 4.3195
CAST/EiJ both 6.0556 1.8612 9.7105 2.4006
CBA/J both 0.0 1.5332 3.0108 -3.0108
CE/J both 0.0 1.7586 3.4536 -3.4536
CZECHII/EiJ both 0.2857 1.7836 3.7883 -3.2169
DBA/1J both 0.0 1.5828 3.1082 -3.1082
DBA/2J both 0.0 1.5332 3.0108 -3.0108
FVB/NJ both 3.5 2.2245 7.8685 -0.8685
I/LnJ both 0.0 1.573 3.089 -3.089
KK/HlJ both 0.0 1.6214 3.184 -3.184
LP/J both 0.1111 1.573 3.2001 -2.9779
MOLF/EiJ both 0.7778 1.573 3.8668 -2.3112
NOD/ShiLtJ both 4.625 1.8021 8.1639 1.0861
NON/ShiLtJ both 0.2 1.5332 3.2108 -2.8108
NZB/BlNJ both 0.0 1.573 3.089 -3.089
NZW/LacJ both 0.65 1.5828 3.7582 -2.4582
PERA/EiJ both 11.4375 2.0434 15.4502 7.4248
P/J both 0.2778 1.573 3.3668 -2.8112
PL/J both 0.05 2.1965 4.3635 -4.2635
RBF/DnJ both 0.1667 1.573 3.2556 -2.9223
RF/J both 0.1 1.8276 3.6891 -3.4891
RIIIS/J both 3.3333 1.5332 6.3441 0.3226
SEA/GnJ both 0.2 1.5828 3.3082 -2.9082
SJL/J both 0.4222 1.5332 3.433 -2.5885
SM/J both 0.0 1.9538 3.8369 -3.8369
SPRET/EiJ both 0.0 1.9538 3.8369 -3.8369
SWR/J both 1.2125 1.5828 4.3207 -1.8957
WSB/EiJ both 0.3333 1.8021 3.8722 -3.2055




  GWAS USING LINEAR MIXED MODELS