Project measure / variable:   Shockley1   HDL

ID, description, units MPD:33407   HDL   HDL cholesterol (HDL)   [mg/dL]  control diet  
high-fat diet study
Data set, strains Shockley1   inbred   10 strains     sex: both     age: 10-13wks
Procedure lipid profile
Ontology mappings

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  STRAIN COMPARISON PLOT
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Shockley1 - HDL cholesterol (HDL) control diet



  MEASURE SUMMARY
Measure Summary FemaleMale
Number of strains tested10 strains10 strains
Mean of the strain means79.2   mg/dL 104   mg/dL
Median of the strain means73.8   mg/dL 93.1   mg/dL
SD of the strain means± 22.4 ± 26.0
Coefficient of variation (CV)0.282 0.251
Min–max range of strain means55.8   –   121   mg/dL 72.1   –   152   mg/dL
Mean sample size per strain5.0   mice 5.0   mice


  ANOVA, Q-Q NORMALITY ASSESSMENT
ANOVA summary      
FactorDFSum of squaresMean sum of squaresF valuep value (Pr>F)
sex 1 15106.8681 15106.8681 143.4148 < 0.0001
strain 9 49739.4649 5526.6072 52.466 < 0.0001
sex:strain 9 3601.7849 400.1983 3.7992 0.0005
Residuals 80 8426.952 105.3369


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 84.8 11.8   5 5.26 0.139 76.1, 101.0 0.25
129S1/SvImJ m 121.0 12.8   5 5.71 0.105 102.0, 137.0 0.66
A/J f 64.8 11.0   5 4.9 0.169 54.6, 77.4 -0.65
A/J m 72.1 4.66   5 2.08 0.0646 64.4, 76.9 -1.22
BALB/cJ f 77.0 13.8   5 6.19 0.18 61.2, 92.5 -0.1
BALB/cJ m 92.9 8.16   5 3.65 0.0878 82.1, 102.0 -0.42
C3H/HeJ f 110.0 12.7   5 5.68 0.115 93.1, 128.0 1.38
C3H/HeJ m 117.0 12.0   5 5.37 0.103 98.9, 128.0 0.51
C57BL/6J f 70.6 17.2   5 7.67 0.243 48.3, 89.2 -0.39
C57BL/6J m 87.2 9.93   5 4.44 0.114 71.8, 97.4 -0.64
DBA/2J f 62.5 8.19   5 3.66 0.131 54.4, 74.0 -0.75
DBA/2J m 93.2 5.51   5 2.47 0.0591 85.3, 98.7 -0.41
I/LnJ f 55.8 13.6   5 6.09 0.244 42.7, 76.0 -1.05
I/LnJ m 83.9 4.33   5 1.94 0.0516 76.7, 87.3 -0.76
MRL/MpJ-Faslpr/J f 89.9 9.3   5 4.16 0.103 78.1, 99.9 0.48
MRL/MpJ-Faslpr/J m 135.0 5.18   5 2.32 0.0382 131.0, 141.0 1.2
NZB/BlNJ f 121.0 10.9   5 4.85 0.0894 104.0, 134.0 1.87
NZB/BlNJ m 152.0 10.4   5 4.64 0.0682 137.0, 166.0 1.85
SM/J f 55.9 5.36   5 2.4 0.0959 50.5, 62.6 -1.04
SM/J m 83.5 6.17   5 2.76 0.0739 75.6, 91.7 -0.78


  LEAST SQUARES MEANS (MODEL-ADJUSTED)
Strain Sex Mean SEM UpperCL LowerCL
129S1/SvImJ f 84.78 4.5899 93.9142 75.6458
129S1/SvImJ m 121.4 4.5899 130.5342 112.2658
A/J f 64.76 4.5899 73.8942 55.6258
A/J m 72.14 4.5899 81.2742 63.0058
BALB/cJ f 77.02 4.5899 86.1542 67.8858
BALB/cJ m 92.92 4.5899 102.0542 83.7858
C3H/HeJ f 110.02 4.5899 119.1542 100.8858
C3H/HeJ m 116.58 4.5899 125.7142 107.4458
C57BL/6J f 70.58 4.5899 79.7142 61.4458
C57BL/6J m 87.2 4.5899 96.3342 78.0658
DBA/2J f 62.48 4.5899 71.6142 53.3458
DBA/2J m 93.22 4.5899 102.3542 84.0858
I/LnJ f 55.78 4.5899 64.9142 46.6458
I/LnJ m 83.86 4.5899 92.9942 74.7258
MRL/MpJ-Faslpr/J f 89.88 4.5899 99.0142 80.7458
MRL/MpJ-Faslpr/J m 135.4 4.5899 144.5342 126.2658
NZB/BlNJ f 121.4 4.5899 130.5342 112.2658
NZB/BlNJ m 152.2 4.5899 161.3342 143.0658
SM/J f 55.88 4.5899 65.0142 46.7458
SM/J m 83.48 4.5899 92.6142 74.3458


  LEAST SQUARES MEANS (MODEL-ADJUSTED), SEXES COMBINED
Strain Sex Mean SEM UpperCL LowerCL
129S1/SvImJ both 103.09 3.2456 109.5489 96.6311
A/J both 68.45 3.2456 74.9089 61.9911
BALB/cJ both 84.97 3.2456 91.4289 78.5111
C3H/HeJ both 113.3 3.2456 119.7589 106.8411
C57BL/6J both 78.89 3.2456 85.3489 72.4311
DBA/2J both 77.85 3.2456 84.3089 71.3911
I/LnJ both 69.82 3.2456 76.2789 63.3611
MRL/MpJ-Faslpr/J both 112.64 3.2456 119.0989 106.1811
NZB/BlNJ both 136.8 3.2456 143.2589 130.3411
SM/J both 69.68 3.2456 76.1389 63.2211




  GWAS USING LINEAR MIXED MODELS