Project measure / variable:   Paigen2   HDLC

ID, description, units MPD:9904   HDLC   HDL cholesterol (plasma)   [mg/dL]  baseline  
high-fat diet study
Data set, strains Paigen2   inbred w/CC7   42 strains     sex: both     age: 7-9wks
Procedure lipid profile
Ontology mappings

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  STRAIN COMPARISON PLOT
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Paigen2 - HDL cholesterol (plasma) baseline



  MEASURE SUMMARY
Measure Summary FemaleMale
Number of strains tested40 strains41 strains
Mean of the strain means58.9   mg/dL 76.3   mg/dL
Median of the strain means52.5   mg/dL 73.2   mg/dL
SD of the strain means± 18.6 ± 20.1
Coefficient of variation (CV)0.315 0.263
Min–max range of strain means36.7   –   109   mg/dL 44.6   –   126   mg/dL
Mean sample size per strain10.2   mice 11.9   mice


  ANOVA, Q-Q NORMALITY ASSESSMENT
ANOVA summary      
FactorDFSum of squaresMean sum of squaresF valuep value (Pr>F)
sex 1 62591.0693 62591.0693 409.8645 < 0.0001
strain 38 310018.7119 8158.3872 53.4235 < 0.0001
sex:strain 38 29094.6462 765.6486 5.0137 < 0.0001
Residuals 794 121253.0258 152.7116


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 63.8 9.03   10 2.86 0.142 50.0, 79.0 0.26
129S1/SvImJ m 106.0 13.6   9 4.53 0.128 78.0, 121.0 1.48
A/J f 45.3 6.13   11 1.85 0.135 33.0, 57.0 -0.73
A/J m 58.3 8.63   23 1.8 0.148 43.0, 75.0 -0.89
AKR/J f 44.9 6.35   14 1.7 0.141 39.0, 64.0 -0.75
AKR/J m 55.1 4.57   9 1.52 0.0829 50.0, 65.0 -1.05
BALB/cByJ f 56.8 12.8   12 3.68 0.225 36.0, 79.0 -0.11
BALB/cByJ m 86.7 16.7   22 3.56 0.193 57.0, 121.0 0.52
BTBR T+ Itpr3tf/J f 72.9 6.51   8 2.3 0.0892 61.5, 78.9 0.75
BTBR T+ Itpr3tf/J m 86.7 12.5   7 4.72 0.144 66.1, 101.0 0.52
BUB/BnJ f 44.1 9.6   11 2.89 0.218 28.1, 61.0 -0.8
BUB/BnJ m 63.4 15.4   5 6.87 0.242 44.0, 78.9 -0.64
C3H/HeJ f 75.8 8.98   10 2.84 0.118 61.0, 88.0 0.91
C3H/HeJ m 111.0 17.7   25 3.55 0.159 56.0, 144.0 1.73
C57BL/10J f 44.6 7.24   10 2.29 0.162 35.0, 58.0 -0.77
C57BL/10J m 61.9 11.1   15 2.87 0.179 40.0, 78.0 -0.72
C57BL/6J f 49.7 7.45   10 2.36 0.15 38.0, 64.0 -0.5
C57BL/6J m 72.3 9.39   10 2.97 0.13 56.0, 88.0 -0.2
C57BLKS/J f 36.7 11.6   10 3.66 0.315 25.0, 67.0 -1.2
C57BR/cdJ f 67.8 7.72   10 2.44 0.114 56.8, 84.0 0.48
C57BR/cdJ m 58.2 18.4   12 5.32 0.317 8.12, 77.0 -0.9
C57L/J f 39.5 6.36   10 2.01 0.161 32.0, 55.0 -1.05
C57L/J m 52.6 7.12   10 2.25 0.135 41.0, 66.0 -1.18
C58/J f 65.4 7.02   5 3.14 0.107 61.5, 77.7 0.35
C58/J m 64.0 19.1   11 5.77 0.299 13.9, 84.0 -0.61
CAST/EiJ f 37.7 6.14   9 2.05 0.163 26.0, 47.0 -1.14
CAST/EiJ m 44.6 6.4   10 2.02 0.143 31.0, 56.0 -1.58
CBA/J f 49.4 7.11   8 2.51 0.144 37.0, 57.0 -0.51
CBA/J m 84.7 8.71   10 2.75 0.103 67.0, 97.0 0.42
CE/J m 80.1 11.4   5 5.09 0.142 69.6, 96.3 0.19
CZECHII/EiJ f 55.5 10.4   18 2.46 0.188 39.0, 74.0 -0.18
CZECHII/EiJ m 65.7 12.7   13 3.53 0.194 54.0, 98.0 -0.53
DBA/1J f 39.6 9.98   9 3.33 0.252 30.0, 63.0 -1.04
DBA/1J m 60.4 28.1   10 8.88 0.465 29.0, 105.0 -0.79
DBA/2J f 42.3 3.83   10 1.21 0.0906 36.0, 48.0 -0.89
DBA/2J m 75.1 9.65   10 3.05 0.129 66.0, 93.0 -0.06
FVB/NJ f 94.7 17.1   11 5.17 0.181 66.0, 128.0 1.92
FVB/NJ m 113.0 6.13   10 1.94 0.0544 105.0, 125.0 1.83
I/LnJ f 42.4 6.9   10 2.18 0.163 34.0, 53.0 -0.89
I/LnJ m 71.7 6.11   10 1.93 0.0852 65.0, 81.0 -0.23
JF1/MsJ f 53.0 6.96   10 2.2 0.131 44.0, 65.0 -0.32
JF1/MsJ m 64.6 9.5   14 2.54 0.147 42.1, 77.8 -0.58
KK/HlJ f 89.3 14.6   6 5.96 0.164 69.6, 107.0 1.63
KK/HlJ m 70.9 30.5   7 11.5 0.431 31.3, 119.0 -0.27
LP/J f 50.2 27.2   11 8.19 0.541 10.4, 78.9 -0.47
LP/J m 84.2 17.4   12 5.04 0.207 63.0, 115.0 0.4
MA/MyJ f 75.8 9.24   10 2.92 0.122 62.0, 89.0 0.91
MA/MyJ m 96.2 8.98   10 2.84 0.0933 81.0, 114.0 0.99
MOLF/EiJ f 49.7 4.68   7 1.77 0.0941 43.0, 58.0 -0.5
MOLF/EiJ m 58.3 10.1   13 2.8 0.173 44.0, 79.0 -0.89
MSM/MsJ f 65.4 13.5   8 4.77 0.206 47.0, 86.0 0.35
MSM/MsJ m 76.6 5.94   14 1.59 0.0776 68.0, 88.0 0.02
NOD/ShiLtJ f 54.6 9.16   16 2.29 0.168 41.0, 73.0 -0.23
NOD/ShiLtJ m 80.8 13.3   12 3.84 0.165 61.0, 104.0 0.23
NON/ShiLtJ f 72.2 9.88   10 3.12 0.137 58.0, 92.8 0.71
NON/ShiLtJ m 91.2 23.0   12 6.63 0.252 41.8, 134.0 0.74
NZB/BlNJ f 100.0 13.9   14 3.7 0.138 83.0, 134.0 2.21
NZB/BlNJ m 126.0 15.3   10 4.85 0.122 105.0, 150.0 2.48
NZW/LacJ f 90.9 12.1   10 3.82 0.133 75.0, 113.0 1.72
NZW/LacJ m 95.1 9.14   8 3.23 0.0961 81.0, 111.0 0.94
PERA/EiJ f 55.0 18.6   9 6.19 0.337 36.0, 84.0 -0.21
PERA/EiJ m 50.6 8.63   9 2.88 0.171 40.0, 63.0 -1.28
PL/J f 51.7 12.3   11 3.7 0.237 31.0, 73.0 -0.39
PL/J m 76.0 9.4   11 2.83 0.124 64.0, 95.0 -0.01
PWK/PhJ m 60.7 5.88   16 1.47 0.0968 52.0, 70.2 -0.78
RF/J f 77.6 9.02   12 2.6 0.116 59.0, 90.0 1.0
RF/J m 93.5 19.7   13 5.45 0.21 64.0, 130.0 0.86
RIIIS/J f 40.2 6.15   10 1.94 0.153 27.8, 50.0 -1.01
RIIIS/J m 47.1 7.14   22 1.52 0.152 30.0, 61.0 -1.45
SEA/GnJ f 52.0 10.5   10 3.31 0.201 37.0, 73.0 -0.37
SEA/GnJ m 75.0 4.97   7 1.88 0.0662 70.0, 85.0 -0.06
SJL/J f 40.6 6.47   10 2.05 0.159 26.0, 48.0 -0.99
SJL/J m 60.9 6.41   15 1.66 0.105 48.0, 71.0 -0.77
SM/J f 48.0 5.38   9 1.79 0.112 41.8, 58.0 -0.59
SM/J m 73.2 12.2   16 3.06 0.167 51.0, 95.1 -0.15
SPRET/EiJ f 109.0 15.0   11 4.53 0.138 93.0, 136.0 2.69
SPRET/EiJ m 121.0 14.7   13 4.08 0.121 86.0, 142.0 2.23
SWR/J f 46.8 9.21   12 2.66 0.197 33.0, 65.0 -0.65
SWR/J m 61.2 11.1   12 3.21 0.181 41.0, 73.0 -0.75
WSB/EiJ f 66.5 7.86   8 2.78 0.118 56.0, 77.0 0.41
WSB/EiJ m 92.3 13.0   11 3.92 0.141 62.0, 110.0 0.8


  LEAST SQUARES MEANS (MODEL-ADJUSTED)
Strain Sex Mean SEM UpperCL LowerCL
129S1/SvImJ f 63.8 3.9078 71.4709 56.1291
129S1/SvImJ m 106.0 4.1192 114.0858 97.9142
A/J f 45.2727 3.726 52.5866 37.9588
A/J m 58.3478 2.5767 63.4059 53.2898
AKR/J f 44.8571 3.3027 51.3402 38.374
AKR/J m 55.1111 4.1192 63.197 47.0253
BALB/cByJ f 56.75 3.5673 63.7525 49.7475
BALB/cByJ m 86.6818 2.6347 91.8535 81.5101
BTBR T+ Itpr3tf/J f 72.9375 4.3691 81.5138 64.3612
BTBR T+ Itpr3tf/J m 86.6714 4.6708 95.8399 77.5029
BUB/BnJ f 44.1182 3.726 51.4321 36.8043
BUB/BnJ m 63.38 5.5265 74.2283 52.5317
C3H/HeJ f 75.8 3.9078 83.4709 68.1291
C3H/HeJ m 111.28 2.4715 116.1315 106.4285
C57BL/10J f 44.6 3.9078 52.2709 36.9291
C57BL/10J m 61.9333 3.1907 68.1966 55.6701
C57BL/6J f 49.7 3.9078 57.3709 42.0291
C57BL/6J m 72.3 3.9078 79.9709 64.6291
C57BR/cdJ f 67.76 3.9078 75.4309 60.0891
C57BR/cdJ m 58.185 3.5673 65.1875 51.1825
C57L/J f 39.5 3.9078 47.1709 31.8291
C57L/J m 52.6 3.9078 60.2709 44.9291
C58/J f 65.44 5.5265 76.2883 54.5917
C58/J m 64.0455 3.726 71.3594 56.7315
CAST/EiJ f 37.6667 4.1192 45.7525 29.5808
CAST/EiJ m 44.6 3.9078 52.2709 36.9291
CBA/J f 49.375 4.3691 57.9513 40.7987
CBA/J m 84.7 3.9078 92.3709 77.0291
CZECHII/EiJ f 55.5 2.9127 61.2176 49.7824
CZECHII/EiJ m 65.6923 3.4274 72.4201 58.9645
DBA/1J f 39.6444 4.1192 47.7303 31.5586
DBA/1J m 60.35 3.9078 68.0209 52.6791
DBA/2J f 42.3 3.9078 49.9709 34.6291
DBA/2J m 75.1 3.9078 82.7709 67.4291
FVB/NJ f 94.7273 3.726 102.0412 87.4134
FVB/NJ m 112.7 3.9078 120.3709 105.0291
I/LnJ f 42.4 3.9078 50.0709 34.7291
I/LnJ m 71.7 3.9078 79.3709 64.0291
JF1/MsJ f 53.0 3.9078 60.6709 45.3291
JF1/MsJ m 64.5643 3.3027 71.0474 58.0812
KK/HlJ f 89.3333 5.045 99.2364 79.4302
KK/HlJ m 70.8714 4.6708 80.0399 61.7029
LP/J f 50.2 3.726 57.5139 42.8861
LP/J m 84.1667 3.5673 91.1692 77.1641
MA/MyJ f 75.8 3.9078 83.4709 68.1291
MA/MyJ m 96.2 3.9078 103.8709 88.5291
MOLF/EiJ f 49.7143 4.6708 58.8828 40.5458
MOLF/EiJ m 58.3077 3.4274 65.0355 51.5799
MSM/MsJ f 65.375 4.3691 73.9513 56.7987
MSM/MsJ m 76.5714 3.3027 83.0545 70.0883
NOD/ShiLtJ f 54.5625 3.0894 60.6269 48.4981
NOD/ShiLtJ m 80.75 3.5673 87.7525 73.7475
NON/ShiLtJ f 72.15 3.9078 79.8209 64.4791
NON/ShiLtJ m 91.225 3.5673 98.2275 84.2225
NZB/BlNJ f 100.1429 3.3027 106.626 93.6598
NZB/BlNJ m 126.0 3.9078 133.6709 118.3291
NZW/LacJ f 90.9 3.9078 98.5709 83.2291
NZW/LacJ m 95.125 4.3691 103.7013 86.5487
PERA/EiJ f 55.0 4.1192 63.0858 46.9142
PERA/EiJ m 50.5556 4.1192 58.6414 42.4697
PL/J f 51.7091 3.726 59.023 44.3952
PL/J m 76.0 3.726 83.3139 68.6861
RF/J f 77.5833 3.5673 84.5859 70.5808
RF/J m 93.4615 3.4274 100.1894 86.7337
RIIIS/J f 40.16 3.9078 47.8309 32.4891
RIIIS/J m 47.0773 2.6347 52.249 41.9055
SEA/GnJ f 52.05 3.9078 59.7209 44.3791
SEA/GnJ m 75.0 4.6708 84.1685 65.8315
SJL/J f 40.6 3.9078 48.2709 32.9291
SJL/J m 60.8667 3.1907 67.1299 54.6034
SM/J f 47.9556 4.1192 56.0414 39.8697
SM/J m 73.2438 3.0894 79.3081 67.1794
SPRET/EiJ f 108.6364 3.726 115.9503 101.3224
SPRET/EiJ m 121.3846 3.4274 128.1124 114.6568
SWR/J f 46.8333 3.5673 53.8359 39.8308
SWR/J m 61.25 3.5673 68.2525 54.2475
WSB/EiJ f 66.5 4.3691 75.0763 57.9237
WSB/EiJ m 92.2545 3.726 99.5685 84.9406


  LEAST SQUARES MEANS (MODEL-ADJUSTED), SEXES COMBINED
Strain Sex Mean SEM UpperCL LowerCL
129S1/SvImJ both 84.9 2.839 90.4728 79.3272
A/J both 51.8103 2.2651 56.2565 47.364
AKR/J both 49.9841 2.6399 55.1661 44.8022
BALB/cByJ both 71.7159 2.2174 76.0686 67.3633
BTBR T+ Itpr3tf/J both 79.8045 3.1978 86.0817 73.5272
BUB/BnJ both 53.7491 3.3326 60.2909 47.2073
C3H/HeJ both 93.54 2.3119 98.0782 89.0018
C57BL/10J both 53.2667 2.5225 58.2182 48.3151
C57BL/6J both 61.0 2.7633 66.4241 55.5759
C57BR/cdJ both 62.9725 2.6456 68.1657 57.7793
C57L/J both 46.05 2.7633 51.4741 40.6259
C58/J both 64.7427 3.3326 71.2845 58.201
CAST/EiJ both 41.1333 2.839 46.7061 35.5605
CBA/J both 67.0375 2.9309 72.7907 61.2843
CZECHII/EiJ both 60.5962 2.2489 65.0107 56.1816
DBA/1J both 49.9972 2.839 55.57 44.4244
DBA/2J both 58.7 2.7633 64.1241 53.2759
FVB/NJ both 103.7136 2.6997 109.0131 98.4142
I/LnJ both 57.05 2.7633 62.4741 51.6259
JF1/MsJ both 58.7821 2.5583 63.8039 53.7604
KK/HlJ both 80.1024 3.4376 86.8502 73.3546
LP/J both 67.1833 2.5792 72.2462 62.1205
MA/MyJ both 86.0 2.7633 91.4241 80.5759
MOLF/EiJ both 54.011 2.8967 59.697 48.3249
MSM/MsJ both 70.9732 2.7385 76.3487 65.5977
NOD/ShiLtJ both 67.6562 2.3596 72.288 63.0245
NON/ShiLtJ both 81.6875 2.6456 86.8807 76.4943
NZB/BlNJ both 113.0714 2.5583 118.0932 108.0496
NZW/LacJ both 93.0125 2.9309 98.7657 87.2593
PERA/EiJ both 52.7778 2.9127 58.4953 47.0602
PL/J both 63.8545 2.6347 69.0263 58.6828
RF/J both 85.5224 2.4735 90.3778 80.667
RIIIS/J both 43.6186 2.3565 48.2444 38.9929
SEA/GnJ both 63.525 3.045 69.5021 57.5479
SJL/J both 50.7333 2.5225 55.6849 45.7818
SM/J both 60.5997 2.5745 65.6533 55.546
SPRET/EiJ both 115.0105 2.5313 119.9793 110.0417
SWR/J both 54.0417 2.5225 58.9932 49.0901
WSB/EiJ both 79.3773 2.8711 85.013 73.7415




  GWAS USING LINEAR MIXED MODELS