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Project measure / variable:   Paigen1   pctHDL_TCH

ID, description, units MPD:2923   pctHDL_TCH   percentage of total plasma cholesterol in HDL fraction   [%]  
high-fat diet study
Data set, strains Paigen1   inbred   43 strains     sex: both     age: 15-19wks
Procedure lipid profile
Ontology mappings

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  STRAIN COMPARISON PLOT
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Paigen1 - percentage of total plasma cholesterol in HDL fraction



  MEASURE SUMMARY
Measure Summary FemaleMale
Number of strains tested43 strains42 strains
Mean of the strain means36.9   % 45.6   %
Median of the strain means35.1   % 45.2   %
SD of the strain means± 14.1 ± 16.8
Coefficient of variation (CV)0.382 0.369
Min–max range of strain means5.89   –   75.2   % 6.53   –   76.8   %
Mean sample size per strain8.2   mice 7.8   mice


  ANOVA, Q-Q NORMALITY ASSESSMENT
ANOVA summary      
FactorDFSum of squaresMean sum of squaresF valuep value (Pr>F)
sex 1 8233.0254 8233.0254 82.6252 < 0.0001
strain 40 132036.5345 3300.9134 33.1274 < 0.0001
sex:strain 40 26467.3618 661.684 6.6405 < 0.0001
Residuals 598 59586.5179 99.643


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 34.8 5.97   9 1.99 0.172 28.9, 46.2 -0.15
129S1/SvImJ m 65.0 17.6   9 5.87 0.271 42.7, 91.0 1.16
A/J f 28.1 9.69   9 3.23 0.345 8.75, 41.1 -0.63
A/J m 30.9 3.4   10 1.08 0.11 25.2, 36.7 -0.87
AKR/J f 51.7 17.1   9 5.69 0.33 23.7, 75.2 1.05
AKR/J m 66.1 4.2   9 1.4 0.0635 61.2, 73.8 1.22
BALB/cJ f 62.1 6.85   10 2.17 0.11 51.3, 74.7 1.78
BALB/cJ m 55.8 13.5   10 4.26 0.242 34.0, 78.3 0.61
BPH/2J f 33.8 18.3   8 6.47 0.541 12.4, 73.0 -0.22
BPH/2J m 67.1 26.6   8 9.42 0.397 38.6, 109.0 1.28
BPL/1J f 58.1 5.63   9 1.88 0.0968 48.2, 64.3 1.5
BPL/1J m 76.8 7.99   8 2.82 0.104 64.9, 87.4 1.86
BPN/3J f 48.8 2.21   10 0.7 0.0454 45.8, 52.3 0.84
BPN/3J m 35.9 12.9   8 4.57 0.36 14.3, 53.5 -0.58
BTBR T+ Itpr3tf/J f 37.4 3.8   9 1.27 0.102 31.2, 44.1 0.03
BTBR T+ Itpr3tf/J m 39.9 8.13   13 2.25 0.204 28.9, 56.3 -0.34
C3H/HeJ f 24.6 2.66   8 0.939 0.108 21.5, 28.7 -0.87
C3H/HeJ m 46.6 15.4   10 4.88 0.331 24.5, 70.0 0.06
C57BL/10J f 40.1 4.95   9 1.65 0.124 32.4, 45.5 0.22
C57BL/10J m 40.9 8.33   9 2.78 0.204 25.8, 53.0 -0.28
C57BL/6J f 28.7 8.91   13 2.47 0.31 19.1, 51.8 -0.58
C57BL/6J m 23.8 4.5   15 1.16 0.189 15.5, 32.5 -1.3
C57BLKS/J f 37.4 6.26   24 1.28 0.167 27.3, 48.8 0.03
C57BLKS/J m 36.1 7.11   15 1.84 0.197 26.1, 48.6 -0.56
C57BR/cdJ f 23.1 5.08   7 1.92 0.22 16.3, 30.1 -0.98
C57BR/cdJ m 33.3 5.28   9 1.76 0.158 22.7, 39.6 -0.73
C57L/J f 33.0 7.16   7 2.71 0.217 23.6, 41.5 -0.28
C57L/J m 39.0 6.19   9 2.06 0.159 28.6, 49.0 -0.39
C58/J f 30.7 6.46   8 2.28 0.21 23.2, 39.3 -0.44
C58/J m 10.5 8.36   9 2.79 0.797 2.44, 26.1 -2.09
CAST/EiJ f 5.89 2.95   5 1.32 0.5 2.84, 9.74 -2.2
CAST/EiJ m 20.6 6.17   9 2.06 0.3 12.7, 32.8 -1.49
CBA/J f 46.0 3.76   9 1.25 0.0817 41.9, 50.5 0.64
CBA/J m 61.3 10.0   10 3.16 0.163 43.6, 75.5 0.94
CE/J f 41.2 12.8   9 4.28 0.312 23.3, 60.6 0.3
CE/J m 35.6 9.88   5 4.42 0.278 25.2, 51.1 -0.59
CZECHII/EiJ f 23.5 3.2   6 1.3 0.136 21.6, 29.9 -0.95
CZECHII/EiJ m 38.6 15.9   7 6.0 0.412 16.6, 56.9 -0.41
DBA/1J f 40.1 6.04   5 2.7 0.15 33.9, 49.1 0.22
DBA/1J m 38.6 18.1   6 7.37 0.468 16.7, 59.0 -0.41
DBA/2J f 43.7 10.3   9 3.45 0.237 29.1, 62.4 0.48
DBA/2J m 75.5 6.61   5 2.95 0.0875 67.7, 82.1 1.78
FVB/NJ f 48.7 10.9   10 3.45 0.224 33.0, 66.2 0.83
FVB/NJ m 52.4 16.9   3 9.75 0.322 33.1, 64.5 0.41
I/LnJ f 18.0 3.19   9 1.06 0.178 13.1, 23.8 -1.34
I/LnJ m 26.0 9.11   9 3.04 0.35 14.9, 44.9 -1.16
KK/HlJ f 23.4 7.54   8 2.67 0.322 12.3, 34.6 -0.96
KK/HlJ m 53.2 5.68   7 2.15 0.107 44.7, 62.4 0.45
LP/J f 59.3 12.1   9 4.04 0.205 44.1, 78.4 1.59
LP/J m 74.0 14.2   10 4.49 0.192 55.8, 95.6 1.69
MOLF/EiJ f 9.1 2.2   7 0.832 0.242 6.46, 12.2 -1.97
MOLF/EiJ m 6.53 7.37   8 2.6 1.13 1.64, 21.2 -2.32
NOD/ShiLtJ f 33.3 7.16   9 2.39 0.215 17.0, 40.5 -0.26
NOD/ShiLtJ m 43.9 6.78   7 2.56 0.155 34.2, 52.1 -0.1
NON/ShiLtJ f 39.3 5.41   8 1.91 0.138 32.4, 47.8 0.17
NON/ShiLtJ m 53.2 11.0   9 3.67 0.207 38.9, 74.9 0.45
NZB/BlNJ f 39.5 5.73   10 1.81 0.145 27.2, 45.8 0.18
NZB/BlNJ m 50.1 5.96   9 1.99 0.119 39.5, 57.1 0.27
NZW/LacJ f 46.4 9.34   7 3.53 0.201 34.6, 60.3 0.67
NZW/LacJ m 59.1 8.31   9 2.77 0.141 45.2, 74.9 0.8
PERA/EiJ f 47.2 11.6   8 4.1 0.246 29.5, 61.0 0.73
PERA/EiJ m 37.1 9.0   3 5.19 0.243 26.9, 44.0 -0.5
P/J f 29.8 5.55   6 2.27 0.186 20.5, 35.4 -0.51
P/J m 52.8 6.35   9 2.12 0.12 41.8, 60.4 0.43
PL/J f 39.3 7.19   7 2.72 0.183 28.9, 51.5 0.17
PL/J m 46.4 5.19   3 2.99 0.112 42.7, 52.3 0.05
RBF/DnJ f 46.5 7.18   8 2.54 0.154 37.3, 57.5 0.68
RBF/DnJ m 44.0 9.44   6 3.85 0.215 33.5, 56.1 -0.09
RF/J f 60.5 4.74   9 1.58 0.0785 53.4, 66.2 1.67
RF/J m 70.1 22.0   6 8.97 0.313 39.8, 106.0 1.46
RIIIS/J f 33.1 5.85   7 2.21 0.176 25.9, 38.9 -0.27
RIIIS/J m 54.3 10.6   7 4.02 0.196 39.6, 70.2 0.52
SEA/GnJ f 35.1 6.69   8 2.37 0.191 26.8, 46.3 -0.13
SEA/GnJ m 54.3 9.94   9 3.31 0.183 38.6, 70.5 0.52
SJL/J f 31.1 5.82   9 1.94 0.187 21.2, 40.4 -0.41
SJL/J m 50.6 0.0   1   0.0 0.0 50.6, 50.6 0.3
SM/J f 25.4 9.22   8 3.26 0.362 17.2, 43.5 -0.82
SM/J m 24.2 13.8   6 5.62 0.57 12.4, 50.7 -1.27
SPRET/EiJ f 75.2 22.9   6 9.36 0.305 39.5, 104.0 2.71
SPRET/EiJ m 57.5 32.7   5 14.6 0.568 30.2, 110.0 0.71
SWR/J f 19.8 3.06   8 1.08 0.154 15.2, 23.1 -1.21
SWR/J m 29.2 7.32   5 3.27 0.251 22.9, 40.8 -0.97
WSB/EiJ f 22.3 4.82   7 1.82 0.216 14.4, 29.9 -1.04
WSB/EiJ m 37.2 5.6   6 2.29 0.15 29.4, 43.2 -0.5
YBR/EiJ f 32.8 12.1   5 5.4 0.368 11.8, 41.1 -0.29


  LEAST SQUARES MEANS (MODEL-ADJUSTED)
Strain Sex Mean SEM UpperCL LowerCL
129S1/SvImJ f 34.7556 3.3274 41.2903 28.2208
129S1/SvImJ m 64.9889 3.3274 71.5237 58.4541
A/J f 28.1056 3.3274 34.6403 21.5708
A/J m 30.86 3.1566 37.0594 24.6606
AKR/J f 51.7 3.3274 58.2348 45.1652
AKR/J m 66.1111 3.3274 72.6459 59.5763
BALB/cJ f 62.11 3.1566 68.3094 55.9106
BALB/cJ m 55.77 3.1566 61.9694 49.5706
BPH/2J f 33.8375 3.5292 40.7687 26.9063
BPH/2J m 67.1125 3.5292 74.0437 60.1813
BPL/1J f 58.1444 3.3274 64.6792 51.6097
BPL/1J m 76.775 3.5292 83.7062 69.8438
BPN/3J f 48.8 3.1566 54.9994 42.6006
BPN/3J m 35.875 3.5292 42.8062 28.9438
BTBR T+ Itpr3tf/J f 37.4222 3.3274 43.957 30.8875
BTBR T+ Itpr3tf/J m 39.9 2.7685 45.3373 34.4627
C3H/HeJ f 24.575 3.5292 31.5062 17.6438
C3H/HeJ m 46.56 3.1566 52.7594 40.3606
C57BL/10J f 40.0778 3.3274 46.6125 33.543
C57BL/10J m 40.8889 3.3274 47.4237 34.3541
C57BL/6J f 28.7 2.7685 34.1373 23.2627
C57BL/6J m 23.7933 2.5774 28.8551 18.7315
C57BLKS/J f 37.3625 2.0376 41.3642 33.3608
C57BLKS/J m 36.08 2.5774 41.1418 31.0182
C57BR/cdJ f 23.1286 3.7729 30.5383 15.7188
C57BR/cdJ m 33.3444 3.3274 39.8792 26.8097
C57L/J f 33.0429 3.7729 40.4526 25.6331
C57L/J m 39.0111 3.3274 45.5459 32.4763
C58/J f 30.7125 3.5292 37.6437 23.7813
C58/J m 10.4844 3.3274 17.0192 3.9497
CAST/EiJ f 5.894 4.4641 14.6613 0.0
CAST/EiJ m 20.5778 3.3274 27.1125 14.043
CBA/J f 46.0 3.3274 52.5348 39.4652
CBA/J m 61.29 3.1566 67.4894 55.0906
CE/J f 41.2 3.3274 47.7348 34.6652
CE/J m 35.58 4.4641 44.3473 26.8127
CZECHII/EiJ f 23.5333 4.0752 31.5368 15.5299
CZECHII/EiJ m 38.5857 3.7729 45.9954 31.176
DBA/1J f 40.14 4.4641 48.9073 31.3727
DBA/1J m 38.6167 4.0752 46.6201 30.6132
DBA/2J f 43.6556 3.3274 50.1903 37.1208
DBA/2J m 75.54 4.4641 84.3073 66.7727
FVB/NJ f 48.72 3.1566 54.9194 42.5206
FVB/NJ m 52.4 5.7632 63.7185 41.0815
I/LnJ f 17.9778 3.3274 24.5125 11.443
I/LnJ m 26.0222 3.3274 32.557 19.4875
KK/HlJ f 23.4 3.5292 30.3312 16.4688
KK/HlJ m 53.2286 3.7729 60.6383 45.8188
LP/J f 59.2667 3.3274 65.8014 52.7319
LP/J m 73.96 3.1566 80.1594 67.7606
MOLF/EiJ f 9.1043 3.7729 16.514 1.6946
MOLF/EiJ m 6.5337 3.5292 13.4649 0.0
NOD/ShiLtJ f 33.3444 3.3274 39.8792 26.8097
NOD/ShiLtJ m 43.8857 3.7729 51.2954 36.476
NON/ShiLtJ f 39.325 3.5292 46.2562 32.3938
NON/ShiLtJ m 53.2444 3.3274 59.7792 46.7097
NZB/BlNJ f 39.48 3.1566 45.6794 33.2806
NZB/BlNJ m 50.1 3.3274 56.6348 43.5652
NZW/LacJ f 46.4286 3.7729 53.8383 39.0188
NZW/LacJ m 59.1 3.3274 65.6348 52.5652
PERA/EiJ f 47.225 3.5292 54.1562 40.2938
PERA/EiJ m 37.0667 5.7632 48.3852 25.7481
P/J f 29.7667 4.0752 37.7701 21.7632
P/J m 52.8333 3.3274 59.3681 46.2986
PL/J f 39.2714 3.7729 46.6812 31.8617
PL/J m 46.3667 5.7632 57.6852 35.0481
RBF/DnJ f 46.475 3.5292 53.4062 39.5438
RBF/DnJ m 43.9667 4.0752 51.9701 35.9632
RF/J f 60.4556 3.3274 66.9903 53.9208
RF/J m 70.1 4.0752 78.1034 62.0966
RIIIS/J f 33.1429 3.7729 40.5526 25.7331
RIIIS/J m 54.2857 3.7729 61.6954 46.876
SEA/GnJ f 35.1375 3.5292 42.0687 28.2063
SEA/GnJ m 54.2889 3.3274 60.8237 47.7541
SM/J f 25.45 3.5292 32.3812 18.5188
SM/J m 24.1667 4.0752 32.1701 16.1632
SPRET/EiJ f 75.1833 4.0752 83.1868 67.1799
SPRET/EiJ m 57.5 4.4641 66.2673 48.7327
SWR/J f 19.8 3.5292 26.7312 12.8688
SWR/J m 29.22 4.4641 37.9873 20.4527
WSB/EiJ f 22.3 3.7729 29.7097 14.8903
WSB/EiJ m 37.2167 4.0752 45.2201 29.2132


  LEAST SQUARES MEANS (MODEL-ADJUSTED), SEXES COMBINED
Strain Sex Mean SEM UpperCL LowerCL
129S1/SvImJ both 49.8722 2.3528 54.493 45.2514
A/J both 29.4828 2.2932 33.9866 24.979
AKR/J both 58.9056 2.3528 63.5263 54.2848
BALB/cJ both 58.94 2.2321 63.3237 54.5563
BPH/2J both 50.475 2.4955 55.3761 45.5739
BPL/1J both 67.4597 2.4252 72.2227 62.6967
BPN/3J both 42.3375 2.3675 46.9871 37.6879
BTBR T+ Itpr3tf/J both 38.6611 2.1643 42.9116 34.4106
C3H/HeJ both 35.5675 2.3675 40.2171 30.9179
C57BL/10J both 40.4833 2.3528 45.1041 35.8626
C57BL/6J both 26.2467 1.8913 29.961 22.5323
C57BLKS/J both 36.7212 1.6428 39.9475 33.495
C57BR/cdJ both 28.2365 2.5153 33.1763 23.2967
C57L/J both 36.027 2.5153 40.9668 31.0872
C58/J both 20.5985 2.4252 25.3615 15.8355
CAST/EiJ both 13.2359 2.7839 18.7033 7.7685
CBA/J both 53.645 2.2932 58.1488 49.1412
CE/J both 38.39 2.7839 43.8574 32.9226
CZECHII/EiJ both 31.0595 2.7768 36.5129 25.6061
DBA/1J both 39.3783 3.0222 45.3138 33.4428
DBA/2J both 59.5978 2.7839 65.0652 54.1304
FVB/NJ both 50.56 3.2855 57.0126 44.1074
I/LnJ both 22.0 2.3528 26.6208 17.3792
KK/HlJ both 38.3143 2.5831 43.3874 33.2412
LP/J both 66.6133 2.2932 71.1171 62.1096
MOLF/EiJ both 7.819 2.5831 12.8921 2.7459
NOD/ShiLtJ both 38.6151 2.5153 43.5549 33.6753
NON/ShiLtJ both 46.2847 2.4252 51.0477 41.5217
NZB/BlNJ both 44.79 2.2932 49.2938 40.2862
NZW/LacJ both 52.7643 2.5153 57.7041 47.8245
PERA/EiJ both 42.1458 3.379 48.7819 35.5097
P/J both 41.3 2.6305 46.4662 36.1338
PL/J both 42.819 3.4442 49.5832 36.0549
RBF/DnJ both 45.2208 2.6955 50.5146 39.9271
RF/J both 65.2778 2.6305 70.444 60.1116
RIIIS/J both 43.7143 2.6678 48.9538 38.4748
SEA/GnJ both 44.7132 2.4252 49.4762 39.9502
SM/J both 24.8083 2.6955 30.1021 19.5146
SPRET/EiJ both 66.3417 3.0222 72.2772 60.4062
SWR/J both 24.51 2.8453 30.0981 18.9219
WSB/EiJ both 29.7583 2.7768 35.2117 24.3049




  GWAS USING LINEAR MIXED MODELS