Phenotype measure:   Paigen1   microvacs

ID, description, units MPD:2930   microvacs   liver microvacuoles (score: 0-4)   [score]
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 - liver microvacuoles (score: 0-4)



  MEASURE SUMMARY
Measure Summary FemaleMale
Number of strains tested43 strains40 strains
Mean of the strain means2.75   score 2.52   score
Median of the strain means3.00   score 2.67   score
SD of the strain means± 0.909 ± 1.03
Coefficient of variation (CV)0.331 0.410
Min–max range of strain means0   –   4.00   score 0   –   4.00   score
Mean sample size per strain3.0   mice 2.9   mice


  ANOVA, Q-Q NORMALITY ASSESSMENT
ANOVA summary      
FactorDFSum of squaresMean sum of squaresF valuep value (Pr>F)
sex 1 3.2907 3.2907 20.4915 < 0.0001
strain 39 170.6508 4.3757 27.2479 < 0.0001
sex:strain 39 44.7009 1.1462 7.1374 < 0.0001
Residuals 159 25.5333 0.1606


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 3.0 0.0   3 0.0 0.0 3.0, 3.0 0.27
129S1/SvImJ m 3.0 0.0   3 0.0 0.0 3.0, 3.0 0.46
A/J f 4.0 0.0   3 0.0 0.0 4.0, 4.0 1.37
A/J m 4.0 0.0   3 0.0 0.0 4.0, 4.0 1.43
AKR/J f 2.67 0.577   3 0.333 0.217 2.0, 3.0 -0.09
AKR/J m 3.0 0.0   3 0.0 0.0 3.0, 3.0 0.46
BALB/cJ f 3.0 0.0   3 0.0 0.0 3.0, 3.0 0.27
BALB/cJ m 3.33 0.577   3 0.333 0.173 3.0, 4.0 0.78
BPH/2J f 3.0 0.0   3 0.0 0.0 3.0, 3.0 0.27
BPH/2J m 3.67 0.577   3 0.333 0.157 3.0, 4.0 1.11
BPL/1J f 3.0 0.0   3 0.0 0.0 3.0, 3.0 0.27
BPL/1J m 2.0 0.0   3 0.0 0.0 2.0, 2.0 -0.5
BPN/3J f 2.33 0.577   3 0.333 0.247 2.0, 3.0 -0.46
BPN/3J m 1.0 0.0   3 0.0 0.0 1.0, 1.0 -1.47
BTBR T+ Itpr3tf/J f 1.67 0.577   3 0.333 0.346 1.0, 2.0 -1.19
BTBR T+ Itpr3tf/J m 1.67 0.577   3 0.333 0.346 1.0, 2.0 -0.82
C3H/HeJ f 2.0 0.0   3 0.0 0.0 2.0, 2.0 -0.83
C3H/HeJ m 3.0 0.0   3 0.0 0.0 3.0, 3.0 0.46
C57BL/10J f 2.33 0.577   3 0.333 0.247 2.0, 3.0 -0.46
C57BL/10J m 3.0 0.0   3 0.0 0.0 3.0, 3.0 0.46
C57BL/6J f 3.0 0.0   3 0.0 0.0 3.0, 3.0 0.27
C57BL/6J m 2.67 0.577   3 0.333 0.217 2.0, 3.0 0.14
C57BLKS/J f 2.0 0.0   3 0.0 0.0 2.0, 2.0 -0.83
C57BLKS/J m 2.33 0.577   3 0.333 0.247 2.0, 3.0 -0.18
C57BR/cdJ f 2.0 0.0   3 0.0 0.0 2.0, 2.0 -0.83
C57BR/cdJ m 3.0 0.0   3 0.0 0.0 3.0, 3.0 0.46
C57L/J f 2.33 0.577   3 0.333 0.247 2.0, 3.0 -0.46
C57L/J m 2.0 0.0   3 0.0 0.0 2.0, 2.0 -0.5
C58/J f 4.0 0.0   3 0.0 0.0 4.0, 4.0 1.37
C58/J m 4.0 0.0   3 0.0 0.0 4.0, 4.0 1.43
CAST/EiJ f 2.6 0.548   5 0.245 0.211 2.0, 3.0 -0.17
CAST/EiJ m 2.33 0.577   3 0.333 0.247 2.0, 3.0 -0.18
CBA/J f 3.0 0.0   3 0.0 0.0 3.0, 3.0 0.27
CBA/J m 3.0 0.0   3 0.0 0.0 3.0, 3.0 0.46
CE/J f 4.0 0.0   3 0.0 0.0 4.0, 4.0 1.37
CE/J m 4.0 0.0   3 0.0 0.0 4.0, 4.0 1.43
CZECHII/EiJ f 0.0 0.0   3 0.0 0.0 -3.03
CZECHII/EiJ m 0.0 0.0   2   0.0 0.0 -2.44
DBA/1J f 2.67 0.577   3 0.333 0.217 2.0, 3.0 -0.09
DBA/1J m 0.667 0.577   3 0.333 0.866 -1.79
DBA/2J f 2.33 0.577   3 0.333 0.247 2.0, 3.0 -0.46
DBA/2J m 4.0 0.0   3 0.0 0.0 4.0, 4.0 1.43
FVB/NJ f 4.0 0.0   2   0.0 0.0 4.0, 4.0 1.37
FVB/NJ m 2.0 0.0   2   0.0 0.0 2.0, 2.0 -0.5
I/LnJ f 1.33 0.577   3 0.333 0.433 1.0, 2.0 -1.56
KK/HlJ f 2.67 0.577   3 0.333 0.217 2.0, 3.0 -0.09
KK/HlJ m 1.5 1.29   4 0.645 0.861 -0.99
LP/J f 2.0 0.0   3 0.0 0.0 2.0, 2.0 -0.83
LP/J m 1.67 0.577   3 0.333 0.346 1.0, 2.0 -0.82
MOLF/EiJ f 3.0 1.0   3 0.577 0.333 2.0, 4.0 0.27
NOD/ShiLtJ f 2.67 0.577   3 0.333 0.217 2.0, 3.0 -0.09
NOD/ShiLtJ m 3.67 0.577   3 0.333 0.157 3.0, 4.0 1.11
NON/ShiLtJ f 3.0 0.0   3 0.0 0.0 3.0, 3.0 0.27
NON/ShiLtJ m 3.0 0.0   3 0.0 0.0 3.0, 3.0 0.46
NZB/BlNJ f 3.0 0.0   3 0.0 0.0 3.0, 3.0 0.27
NZB/BlNJ m 2.33 0.577   3 0.333 0.247 2.0, 3.0 -0.18
NZW/LacJ f 3.33 0.577   3 0.333 0.173 3.0, 4.0 0.64
NZW/LacJ m 3.0 0.0   3 0.0 0.0 3.0, 3.0 0.46
PERA/EiJ f 4.0 0.0   3 0.0 0.0 4.0, 4.0 1.37
PERA/EiJ m 3.0 0.0   2   0.0 0.0 3.0, 3.0 0.46
P/J f 3.0 0.0   3 0.0 0.0 3.0, 3.0 0.27
P/J m 3.0 0.0   3 0.0 0.0 3.0, 3.0 0.46
PL/J f 3.0 0.0   3 0.0 0.0 3.0, 3.0 0.27
PL/J m 2.67 0.577   3 0.333 0.217 2.0, 3.0 0.14
RBF/DnJ f 4.0 0.0   3 0.0 0.0 4.0, 4.0 1.37
RBF/DnJ m 3.67 0.577   3 0.333 0.157 3.0, 4.0 1.11
RF/J f 3.33 0.577   3 0.333 0.173 3.0, 4.0 0.64
RF/J m 2.67 0.577   3 0.333 0.217 2.0, 3.0 0.14
RIIIS/J f 4.0 0.0   3 0.0 0.0 4.0, 4.0 1.37
RIIIS/J m 4.0 0.0   3 0.0 0.0 4.0, 4.0 1.43
SEA/GnJ f 2.0 0.0   3 0.0 0.0 2.0, 2.0 -0.83
SEA/GnJ m 2.0 0.0   3 0.0 0.0 2.0, 2.0 -0.5
SJL/J f 3.0 0.0   3 0.0 0.0 3.0, 3.0 0.27
SJL/J m 2.33 0.577   3 0.333 0.247 2.0, 3.0 -0.18
SM/J f 2.0 0.0   3 0.0 0.0 2.0, 2.0 -0.83
SM/J m 1.33 0.577   3 0.333 0.433 1.0, 2.0 -1.15
SPRET/EiJ f 0.333 0.577   3 0.333 1.73 -2.66
SPRET/EiJ m 0.667 0.577   3 0.333 0.866 -1.79
SWR/J f 4.0 0.0   3 0.0 0.0 4.0, 4.0 1.37
SWR/J m 1.0 0.0   3 0.0 0.0 1.0, 1.0 -1.47
WSB/EiJ f 3.0 0.0   3 0.0 0.0 3.0, 3.0 0.27
WSB/EiJ m 1.67 0.577   3 0.333 0.346 1.0, 2.0 -0.82
YBR/EiJ f 2.67 0.577   3 0.333 0.217 2.0, 3.0 -0.09


  LEAST SQUARES MEANS (MODEL-ADJUSTED)
Strain Sex Mean SEM UpperCL LowerCL
129S1/SvImJ f 3.0 0.2314 3.4569 2.5431
129S1/SvImJ m 3.0 0.2314 3.4569 2.5431
A/J f 4.0 0.2314 4.4569 3.5431
A/J m 4.0 0.2314 4.4569 3.5431
AKR/J f 2.6667 0.2314 3.1236 2.2097
AKR/J m 3.0 0.2314 3.4569 2.5431
BALB/cJ f 3.0 0.2314 3.4569 2.5431
BALB/cJ m 3.3333 0.2314 3.7903 2.8764
BPH/2J f 3.0 0.2314 3.4569 2.5431
BPH/2J m 3.6667 0.2314 4.1236 3.2097
BPL/1J f 3.0 0.2314 3.4569 2.5431
BPL/1J m 2.0 0.2314 2.4569 1.5431
BPN/3J f 2.3333 0.2314 2.7903 1.8764
BPN/3J m 1.0 0.2314 1.4569 0.5431
BTBR T+ Itpr3tf/J f 1.6667 0.2314 2.1236 1.2097
BTBR T+ Itpr3tf/J m 1.6667 0.2314 2.1236 1.2097
C3H/HeJ f 2.0 0.2314 2.4569 1.5431
C3H/HeJ m 3.0 0.2314 3.4569 2.5431
C57BL/10J f 2.3333 0.2314 2.7903 1.8764
C57BL/10J m 3.0 0.2314 3.4569 2.5431
C57BL/6J f 3.0 0.2314 3.4569 2.5431
C57BL/6J m 2.6667 0.2314 3.1236 2.2097
C57BLKS/J f 2.0 0.2314 2.4569 1.5431
C57BLKS/J m 2.3333 0.2314 2.7903 1.8764
C57BR/cdJ f 2.0 0.2314 2.4569 1.5431
C57BR/cdJ m 3.0 0.2314 3.4569 2.5431
C57L/J f 2.3333 0.2314 2.7903 1.8764
C57L/J m 2.0 0.2314 2.4569 1.5431
C58/J f 4.0 0.2314 4.4569 3.5431
C58/J m 4.0 0.2314 4.4569 3.5431
CAST/EiJ f 2.6 0.1792 2.9539 2.2461
CAST/EiJ m 2.3333 0.2314 2.7903 1.8764
CBA/J f 3.0 0.2314 3.4569 2.5431
CBA/J m 3.0 0.2314 3.4569 2.5431
CE/J f 4.0 0.2314 4.4569 3.5431
CE/J m 4.0 0.2314 4.4569 3.5431
CZECHII/EiJ f 0.0 0.2314 0.4569 -0.4569
CZECHII/EiJ m 0.0 0.2834 0.5596 -0.5596
DBA/1J f 2.6667 0.2314 3.1236 2.2097
DBA/1J m 0.6667 0.2314 1.1236 0.2097
DBA/2J f 2.3333 0.2314 2.7903 1.8764
DBA/2J m 4.0 0.2314 4.4569 3.5431
FVB/NJ f 4.0 0.2834 4.5596 3.4404
FVB/NJ m 2.0 0.2834 2.5596 1.4404
KK/HlJ f 2.6667 0.2314 3.1236 2.2097
KK/HlJ m 1.5 0.2004 1.8957 1.1043
LP/J f 2.0 0.2314 2.4569 1.5431
LP/J m 1.6667 0.2314 2.1236 1.2097
NOD/ShiLtJ f 2.6667 0.2314 3.1236 2.2097
NOD/ShiLtJ m 3.6667 0.2314 4.1236 3.2097
NON/ShiLtJ f 3.0 0.2314 3.4569 2.5431
NON/ShiLtJ m 3.0 0.2314 3.4569 2.5431
NZB/BlNJ f 3.0 0.2314 3.4569 2.5431
NZB/BlNJ m 2.3333 0.2314 2.7903 1.8764
NZW/LacJ f 3.3333 0.2314 3.7903 2.8764
NZW/LacJ m 3.0 0.2314 3.4569 2.5431
PERA/EiJ f 4.0 0.2314 4.4569 3.5431
PERA/EiJ m 3.0 0.2834 3.5596 2.4404
P/J f 3.0 0.2314 3.4569 2.5431
P/J m 3.0 0.2314 3.4569 2.5431
PL/J f 3.0 0.2314 3.4569 2.5431
PL/J m 2.6667 0.2314 3.1236 2.2097
RBF/DnJ f 4.0 0.2314 4.4569 3.5431
RBF/DnJ m 3.6667 0.2314 4.1236 3.2097
RF/J f 3.3333 0.2314 3.7903 2.8764
RF/J m 2.6667 0.2314 3.1236 2.2097
RIIIS/J f 4.0 0.2314 4.4569 3.5431
RIIIS/J m 4.0 0.2314 4.4569 3.5431
SEA/GnJ f 2.0 0.2314 2.4569 1.5431
SEA/GnJ m 2.0 0.2314 2.4569 1.5431
SJL/J f 3.0 0.2314 3.4569 2.5431
SJL/J m 2.3333 0.2314 2.7903 1.8764
SM/J f 2.0 0.2314 2.4569 1.5431
SM/J m 1.3333 0.2314 1.7903 0.8764
SPRET/EiJ f 0.3333 0.2314 0.7903 -0.1236
SPRET/EiJ m 0.6667 0.2314 1.1236 0.2097
SWR/J f 4.0 0.2314 4.4569 3.5431
SWR/J m 1.0 0.2314 1.4569 0.5431
WSB/EiJ f 3.0 0.2314 3.4569 2.5431
WSB/EiJ m 1.6667 0.2314 2.1236 1.2097


  LEAST SQUARES MEANS (MODEL-ADJUSTED), SEXES COMBINED
Strain Sex Mean SEM UpperCL LowerCL
129S1/SvImJ both 3.0 0.1636 3.3231 2.6769
A/J both 4.0 0.1636 4.3231 3.6769
AKR/J both 2.8333 0.1636 3.1564 2.5102
BALB/cJ both 3.1667 0.1636 3.4898 2.8436
BPH/2J both 3.3333 0.1636 3.6564 3.0102
BPL/1J both 2.5 0.1636 2.8231 2.1769
BPN/3J both 1.6667 0.1636 1.9898 1.3436
BTBR T+ Itpr3tf/J both 1.6667 0.1636 1.9898 1.3436
C3H/HeJ both 2.5 0.1636 2.8231 2.1769
C57BL/10J both 2.6667 0.1636 2.9898 2.3436
C57BL/6J both 2.8333 0.1636 3.1564 2.5102
C57BLKS/J both 2.1667 0.1636 2.4898 1.8436
C57BR/cdJ both 2.5 0.1636 2.8231 2.1769
C57L/J both 2.1667 0.1636 2.4898 1.8436
C58/J both 4.0 0.1636 4.3231 3.6769
CAST/EiJ both 2.4667 0.1463 2.7557 2.1777
CBA/J both 3.0 0.1636 3.3231 2.6769
CE/J both 4.0 0.1636 4.3231 3.6769
CZECHII/EiJ both 0.0 0.1829 0.3612 -0.3612
DBA/1J both 1.6667 0.1636 1.9898 1.3436
DBA/2J both 3.1667 0.1636 3.4898 2.8436
FVB/NJ both 3.0 0.2004 3.3957 2.6043
KK/HlJ both 2.0833 0.153 2.3856 1.7811
LP/J both 1.8333 0.1636 2.1564 1.5102
NOD/ShiLtJ both 3.1667 0.1636 3.4898 2.8436
NON/ShiLtJ both 3.0 0.1636 3.3231 2.6769
NZB/BlNJ both 2.6667 0.1636 2.9898 2.3436
NZW/LacJ both 3.1667 0.1636 3.4898 2.8436
PERA/EiJ both 3.5 0.1829 3.8612 3.1388
P/J both 3.0 0.1636 3.3231 2.6769
PL/J both 2.8333 0.1636 3.1564 2.5102
RBF/DnJ both 3.8333 0.1636 4.1564 3.5102
RF/J both 3.0 0.1636 3.3231 2.6769
RIIIS/J both 4.0 0.1636 4.3231 3.6769
SEA/GnJ both 2.0 0.1636 2.3231 1.6769
SJL/J both 2.6667 0.1636 2.9898 2.3436
SM/J both 1.6667 0.1636 1.9898 1.3436
SPRET/EiJ both 0.5 0.1636 0.8231 0.1769
SWR/J both 2.5 0.1636 2.8231 2.1769
WSB/EiJ both 2.3333 0.1636 2.6564 2.0102




  GWAS USING LINEAR MIXED MODELS