Project measure / variable:   Paigen1   HDL_Ch

ID, description, units MPD:2921   HDL_Ch   HDL cholesterol (plasma)   [mg/dL]  
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 - HDL cholesterol (plasma)



  MEASURE SUMMARY
Measure Summary FemaleMale
Number of strains tested43 strains42 strains
Mean of the strain means77.3   mg/dL 95.2   mg/dL
Median of the strain means74.8   mg/dL 86.5   mg/dL
SD of the strain means± 35.1 ± 37.2
Coefficient of variation (CV)0.454 0.391
Min–max range of strain means21.7   –   230   mg/dL 21.5   –   194   mg/dL
Mean sample size per strain8.9   mice 8.2   mice


  ANOVA, Q-Q NORMALITY ASSESSMENT
ANOVA summary      
FactorDFSum of squaresMean sum of squaresF valuep value (Pr>F)
sex 1 49960.0178 49960.0178 124.9586 < 0.0001
strain 40 723258.294 18081.4574 45.2248 < 0.0001
sex:strain 40 173333.1937 4333.3298 10.8384 < 0.0001
Residuals 645 257879.1544 399.8126


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 75.4 11.8   9 3.92 0.156 64.0, 98.0 -0.06
129S1/SvImJ m 150.0 45.8   9 15.3 0.305 87.5, 215.0 1.48
A/J f 82.4 25.1   10 7.93 0.304 50.0, 122.0 0.14
A/J m 85.0 14.1   10 4.44 0.165 58.0, 102.0 -0.27
AKR/J f 75.1 21.3   9 7.1 0.283 42.4, 111.0 -0.06
AKR/J m 86.6 8.59   10 2.72 0.0992 66.0, 96.0 -0.23
BALB/cJ f 112.0 7.93   10 2.51 0.0706 96.0, 124.0 0.99
BALB/cJ m 68.0 13.6   10 4.3 0.2 48.0, 90.0 -0.73
BPH/2J f 63.0 33.9   10 10.7 0.538 18.0, 126.0 -0.41
BPH/2J m 99.8 35.4   9 11.8 0.355 66.0, 152.0 0.13
BPL/1J f 117.0 5.21   9 1.74 0.0445 108.0, 126.0 1.13
BPL/1J m 157.0 22.5   8 7.95 0.144 124.0, 188.0 1.66
BPN/3J f 90.2 11.4   10 3.62 0.127 74.0, 110.0 0.37
BPN/3J m 69.8 25.6   8 9.06 0.367 28.0, 108.0 -0.68
BTBR T+ Itpr3tf/J f 68.7 7.25   9 2.42 0.106 60.0, 82.0 -0.25
BTBR T+ Itpr3tf/J m 77.1 17.0   14 4.54 0.22 56.0, 116.0 -0.49
C3H/HeJ f 74.8 9.94   10 3.14 0.133 62.0, 94.0 -0.07
C3H/HeJ m 118.0 44.6   10 14.1 0.378 54.0, 184.0 0.61
C57BL/10J f 53.2 9.15   10 2.89 0.172 42.0, 68.0 -0.69
C57BL/10J m 82.6 20.4   10 6.44 0.246 48.0, 114.0 -0.34
C57BL/6J f 53.9 16.9   18 3.99 0.314 36.0, 92.0 -0.67
C57BL/6J m 61.3 9.42   16 2.36 0.154 46.0, 77.0 -0.91
C57BLKS/J f 64.0 13.5   25 2.69 0.21 45.0, 90.0 -0.38
C57BLKS/J m 62.9 10.2   16 2.54 0.162 47.0, 80.0 -0.87
C57BR/cdJ f 61.4 10.9   7 4.13 0.178 42.0, 74.0 -0.45
C57BR/cdJ m 74.7 9.33   9 3.11 0.125 58.0, 92.0 -0.55
C57L/J f 48.0 16.1   8 5.68 0.335 30.0, 80.0 -0.84
C57L/J m 61.6 7.59   10 2.4 0.123 50.0, 76.0 -0.9
C58/J f 96.7 16.7   9 5.57 0.173 76.0, 124.0 0.55
C58/J m 58.2 43.9   10 13.9 0.755 16.0, 124.0 -0.99
CAST/EiJ f 21.7 16.2   6 6.6 0.746 4.0, 48.0 -1.58
CAST/EiJ m 59.8 15.0   9 5.02 0.252 34.0, 88.0 -0.95
CBA/J f 46.0 5.74   9 1.91 0.125 36.0, 54.0 -0.89
CBA/J m 107.0 15.9   10 5.02 0.148 82.0, 126.0 0.32
CE/J f 75.6 22.3   10 7.04 0.295 42.0, 104.0 -0.05
CE/J m 97.7 24.2   6 9.87 0.248 58.0, 120.0 0.07
CZECHII/EiJ f 49.3 6.41   6 2.62 0.13 40.0, 58.0 -0.8
CZECHII/EiJ m 74.6 15.0   7 5.69 0.202 56.0, 96.0 -0.55
DBA/1J f 51.2 8.0   8 2.83 0.156 40.0, 66.0 -0.74
DBA/1J m 51.7 18.7   6 7.63 0.362 30.0, 72.0 -1.17
DBA/2J f 50.8 13.2   10 4.17 0.259 32.0, 70.0 -0.76
DBA/2J m 156.0 16.0   7 6.04 0.103 138.0, 174.0 1.64
FVB/NJ f 85.8 19.5   10 6.15 0.227 55.7, 111.0 0.24
FVB/NJ m 121.0 31.0   3 17.9 0.256 90.0, 152.0 0.7
I/LnJ f 29.1 4.59   9 1.53 0.158 22.0, 36.0 -1.37
I/LnJ m 43.1 13.4   9 4.47 0.311 26.0, 66.0 -1.4
KK/HlJ f 68.9 14.7   9 4.91 0.214 44.0, 88.0 -0.24
KK/HlJ m 106.0 17.9   8 6.33 0.17 80.0, 134.0 0.29
LP/J f 97.4 15.6   10 4.92 0.16 82.0, 126.0 0.57
LP/J m 125.0 35.5   10 11.2 0.283 86.0, 178.0 0.8
MOLF/EiJ f 51.3 13.4   9 4.47 0.261 34.0, 78.0 -0.74
MOLF/EiJ m 21.5 5.93   8 2.1 0.276 12.0, 28.0 -1.98
NOD/ShiLtJ f 98.8 17.8   10 5.63 0.18 80.0, 130.0 0.61
NOD/ShiLtJ m 133.0 23.9   7 9.03 0.179 102.0, 156.0 1.02
NON/ShiLtJ f 78.5 7.91   8 2.8 0.101 68.0, 88.0 0.03
NON/ShiLtJ m 134.0 25.1   10 7.94 0.187 98.0, 182.0 1.05
NZB/BlNJ f 140.0 19.8   10 6.26 0.141 102.0, 168.0 1.78
NZB/BlNJ m 167.0 22.7   9 7.56 0.136 128.0, 186.0 1.93
NZW/LacJ f 101.0 11.5   7 4.36 0.114 84.0, 120.0 0.67
NZW/LacJ m 126.0 13.7   10 4.34 0.109 104.0, 152.0 0.83
PERA/EiJ f 126.0 30.1   8 10.7 0.239 72.0, 162.0 1.39
PERA/EiJ m 83.3 28.9   3 16.7 0.347 50.0, 102.0 -0.32
P/J f 79.3 11.8   6 4.84 0.149 62.0, 96.0 0.06
P/J m 128.0 22.7   9 7.57 0.177 86.0, 146.0 0.88
PL/J f 84.5 9.24   8 3.27 0.109 70.0, 96.0 0.2
PL/J m 109.0 6.43   3 3.71 0.0592 104.0, 116.0 0.37
RBF/DnJ f 230.0 27.6   8 9.77 0.12 195.0, 279.0 4.35
RBF/DnJ m 194.0 57.1   7 21.6 0.295 123.0, 270.0 2.66
RF/J f 92.6 7.95   10 2.51 0.0858 80.0, 106.0 0.43
RF/J m 118.0 27.8   6 11.3 0.235 68.0, 142.0 0.61
RIIIS/J f 58.0 15.0   8 5.3 0.259 42.0, 84.0 -0.55
RIIIS/J m 84.6 8.77   7 3.32 0.104 70.0, 94.0 -0.28
SEA/GnJ f 68.8 14.8   8 5.22 0.215 54.0, 94.0 -0.24
SEA/GnJ m 86.4 11.2   9 3.74 0.13 66.0, 100.0 -0.24
SJL/J f 55.6 7.06   9 2.35 0.127 44.0, 66.0 -0.62
SJL/J m 91.0 0.0   1   0.0 0.0 91.0, 91.0 -0.11
SM/J f 55.0 10.4   8 3.66 0.188 40.0, 72.0 -0.64
SM/J m 55.3 16.1   6 6.59 0.292 36.0, 76.0 -1.07
SPRET/EiJ f 116.0 39.8   7 15.0 0.342 70.0, 166.0 1.1
SPRET/EiJ m 63.2 29.3   5 13.1 0.464 16.0, 92.0 -0.86
SWR/J f 43.1 6.57   9 2.19 0.152 36.0, 56.0 -0.98
SWR/J m 59.6 13.4   5 6.01 0.226 44.0, 80.0 -0.96
WSB/EiJ f 48.2 10.9   8 3.84 0.225 26.0, 62.0 -0.83
WSB/EiJ m 88.0 7.66   7 2.89 0.087 78.0, 98.0 -0.19
YBR/EiJ f 87.6 24.9   5 11.1 0.284 50.0, 118.0 0.29


  LEAST SQUARES MEANS (MODEL-ADJUSTED)
Strain Sex Mean SEM UpperCL LowerCL
129S1/SvImJ f 75.4444 6.6651 88.5324 62.3565
129S1/SvImJ m 150.2778 6.6651 163.3657 137.1899
A/J f 82.4 6.3231 94.8163 69.9837
A/J m 85.0 6.3231 97.4163 72.5837
AKR/J f 75.1444 6.6651 88.2324 62.0565
AKR/J m 86.6 6.3231 99.0163 74.1837
BALB/cJ f 112.4 6.3231 124.8163 99.9837
BALB/cJ m 68.0 6.3231 80.4163 55.5837
BPH/2J f 63.0 6.3231 75.4163 50.5837
BPH/2J m 99.7778 6.6651 112.8657 86.6899
BPL/1J f 117.1111 6.6651 130.199 104.0232
BPL/1J m 156.75 7.0694 170.6318 142.8682
BPN/3J f 90.2 6.3231 102.6163 77.7837
BPN/3J m 69.75 7.0694 83.6318 55.8682
BTBR T+ Itpr3tf/J f 68.6667 6.6651 81.7546 55.5787
BTBR T+ Itpr3tf/J m 77.1429 5.344 87.6365 66.6492
C3H/HeJ f 74.8 6.3231 87.2163 62.3837
C3H/HeJ m 118.0 6.3231 130.4163 105.5837
C57BL/10J f 53.2 6.3231 65.6163 40.7837
C57BL/10J m 82.6 6.3231 95.0163 70.1837
C57BL/6J f 53.8889 4.7129 63.1434 44.6343
C57BL/6J m 61.3125 4.9988 71.1284 51.4966
C57BLKS/J f 64.04 3.9991 71.8928 56.1872
C57BLKS/J m 62.875 4.9988 72.6909 53.0591
C57BR/cdJ f 61.4286 7.5575 76.2689 46.5883
C57BR/cdJ m 74.6667 6.6651 87.7546 61.5787
C57L/J f 48.0 7.0694 61.8818 34.1182
C57L/J m 61.6 6.3231 74.0163 49.1837
C58/J f 96.6667 6.6651 109.7546 83.5787
C58/J m 58.2 6.3231 70.6163 45.7837
CAST/EiJ f 21.6667 8.1631 37.696 5.6373
CAST/EiJ m 59.7778 6.6651 72.8657 46.6899
CBA/J f 46.0 6.6651 59.0879 32.9121
CBA/J m 107.2 6.3231 119.6163 94.7837
CE/J f 75.6 6.3231 88.0163 63.1837
CE/J m 97.6667 8.1631 113.696 81.6373
CZECHII/EiJ f 49.3333 8.1631 65.3627 33.304
CZECHII/EiJ m 74.5714 7.5575 89.4117 59.7311
DBA/1J f 51.25 7.0694 65.1318 37.3682
DBA/1J m 51.6667 8.1631 67.696 35.6373
DBA/2J f 50.8 6.3231 63.2163 38.3837
DBA/2J m 155.5714 7.5575 170.4117 140.7311
FVB/NJ f 85.79 6.3231 98.2063 73.3737
FVB/NJ m 121.3333 11.5443 144.0023 98.6644
I/LnJ f 29.1111 6.6651 42.199 16.0232
I/LnJ m 43.1111 6.6651 56.199 30.0232
KK/HlJ f 68.8889 6.6651 81.9768 55.801
KK/HlJ m 105.5 7.0694 119.3818 91.6182
LP/J f 97.4 6.3231 109.8163 84.9837
LP/J m 125.2 6.3231 137.6163 112.7837
MOLF/EiJ f 51.3333 6.6651 64.4213 38.2454
MOLF/EiJ m 21.5 7.0694 35.3818 7.6182
NOD/ShiLtJ f 98.8 6.3231 111.2163 86.3837
NOD/ShiLtJ m 133.1429 7.5575 147.9832 118.3025
NON/ShiLtJ f 78.5 7.0694 92.3818 64.6182
NON/ShiLtJ m 134.0 6.3231 146.4163 121.5837
NZB/BlNJ f 140.0 6.3231 152.4163 127.5837
NZB/BlNJ m 166.8889 6.6651 179.9768 153.801
NZW/LacJ f 101.1429 7.5575 115.9832 86.3025
NZW/LacJ m 126.0 6.3231 138.4163 113.5837
PERA/EiJ f 126.25 7.0694 140.1318 112.3682
PERA/EiJ m 83.3333 11.5443 106.0023 60.6644
P/J f 79.3333 8.1631 95.3627 63.304
P/J m 128.4444 6.6651 141.5324 115.3565
PL/J f 84.5 7.0694 98.3818 70.6182
PL/J m 108.6667 11.5443 131.3356 85.9977
RBF/DnJ f 229.875 7.0694 243.7568 215.9932
RBF/DnJ m 193.7143 7.5575 208.5546 178.874
RF/J f 92.6 6.3231 105.0163 80.1837
RF/J m 118.3333 8.1631 134.3627 102.304
RIIIS/J f 58.0 7.0694 71.8818 44.1182
RIIIS/J m 84.5714 7.5575 99.4117 69.7311
SEA/GnJ f 68.75 7.0694 82.6318 54.8682
SEA/GnJ m 86.4444 6.6651 99.5324 73.3565
SM/J f 55.0 7.0694 68.8818 41.1182
SM/J m 55.3333 8.1631 71.3627 39.304
SPRET/EiJ f 116.2857 7.5575 131.126 101.4454
SPRET/EiJ m 63.2 8.9422 80.7593 45.6407
SWR/J f 43.1111 6.6651 56.199 30.0232
SWR/J m 59.6 8.9422 77.1593 42.0407
WSB/EiJ f 48.25 7.0694 62.1318 34.3682
WSB/EiJ m 88.0 7.5575 102.8403 73.1597


  LEAST SQUARES MEANS (MODEL-ADJUSTED), SEXES COMBINED
Strain Sex Mean SEM UpperCL LowerCL
129S1/SvImJ both 112.8611 4.7129 122.1157 103.6066
A/J both 83.7 4.4711 92.4796 74.9204
AKR/J both 80.8722 4.5936 89.8925 71.852
BALB/cJ both 90.2 4.4711 98.9796 81.4204
BPH/2J both 81.3889 4.5936 90.4091 72.3687
BPL/1J both 136.9306 4.858 146.4699 127.3912
BPN/3J both 79.975 4.7423 89.2872 70.6628
BTBR T+ Itpr3tf/J both 72.9048 4.2715 81.2924 64.5171
C3H/HeJ both 96.4 4.4711 105.1796 87.6204
C57BL/10J both 67.9 4.4711 76.6796 59.1204
C57BL/6J both 57.6007 3.4351 64.3461 50.8553
C57BLKS/J both 63.4575 3.2008 69.7428 57.1722
C57BR/cdJ both 68.0476 5.0383 77.9412 58.1541
C57L/J both 54.8 4.7423 64.1122 45.4878
C58/J both 77.4333 4.5936 86.4536 68.4131
CAST/EiJ both 40.7222 5.2692 51.0691 30.3753
CBA/J both 76.6 4.5936 85.6202 67.5798
CE/J both 86.6333 5.1628 96.7712 76.4955
CZECHII/EiJ both 61.9524 5.5622 72.8746 51.0302
DBA/1J both 51.4583 5.3994 62.0608 40.8559
DBA/2J both 103.1857 4.9269 112.8604 93.511
FVB/NJ both 103.5617 6.5813 116.485 90.6384
I/LnJ both 36.1111 4.7129 45.3657 26.8566
KK/HlJ both 87.1944 4.858 96.7338 77.6551
LP/J both 111.3 4.4711 120.0796 102.5204
MOLF/EiJ both 36.4167 4.858 45.956 26.8773
NOD/ShiLtJ both 115.9714 4.9269 125.6461 106.2967
NON/ShiLtJ both 106.25 4.7423 115.5622 96.9378
NZB/BlNJ both 153.4444 4.5936 162.4647 144.4242
NZW/LacJ both 113.5714 4.9269 123.2461 103.8967
PERA/EiJ both 104.7917 6.7684 118.0825 91.5008
P/J both 103.8889 5.2692 114.2358 93.542
PL/J both 96.5833 6.7684 109.8742 83.2925
RBF/DnJ both 211.7946 5.1743 221.9551 201.6342
RF/J both 105.4667 5.1628 115.6045 95.3288
RIIIS/J both 71.2857 5.1743 81.4462 61.1252
SEA/GnJ both 77.5972 4.858 87.1366 68.0578
SM/J both 55.1667 5.3994 65.7691 44.5642
SPRET/EiJ both 89.7429 5.854 101.2381 78.2476
SWR/J both 51.3556 5.5764 62.3057 40.4054
WSB/EiJ both 68.125 5.1743 78.2855 57.9645




  GWAS USING LINEAR MIXED MODELS