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Project measure / variable:   Paigen2   nonHDL_fat17

ID, description, units MPD:9908   nonHDL_fat17   non-HDL cholesterol (plasma)   [mg/dL]  after 17wks on diet  
high-fat diet study
Data set, strains Paigen2   inbred w/CC7   41 strains     sex: both     age: 7-9wks
Procedure lipid profile
Ontology mappings

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  STRAIN COMPARISON PLOT
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Paigen2 - non-HDL cholesterol (plasma) after 17wks on diet



  MEASURE SUMMARY
Measure Summary FemaleMale
Number of strains tested40 strains35 strains
Mean of the strain means183   mg/dL 149   mg/dL
Median of the strain means144   mg/dL 131   mg/dL
SD of the strain means± 185 ± 88.9
Coefficient of variation (CV)1.01 0.595
Min–max range of strain means30.0   –   1168   mg/dL 46.6   –   412   mg/dL
Mean sample size per strain8.7   mice 8.3   mice


  ANOVA, Q-Q NORMALITY ASSESSMENT
ANOVA summary      
FactorDFSum of squaresMean sum of squaresF valuep value (Pr>F)
sex 1 12100.8781 12100.8781 1.4842 0.2237
strain 33 4294648.9181 130140.8763 15.9626 < 0.0001
sex:strain 33 524722.6663 15900.6869 1.9503 0.0015
Residuals 513 4182428.116 8152.8813


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 108.0 32.1   10 10.2 0.298 66.0, 172.0 -0.41
129S1/SvImJ m 79.6 22.5   9 7.51 0.283 45.0, 105.0 -0.78
A/J f 459.0 225.0   10 71.3 0.491 178.0, 863.0 1.49
A/J m 412.0 281.0   8 99.4 0.683 173.0, 844.0 2.95
AKR/J f 94.2 129.0   12 37.3 1.37 25.0, 500.0 -0.48
BALB/cByJ f 89.6 19.7   11 5.94 0.22 59.0, 123.0 -0.51
BALB/cByJ m 99.4 42.6   8 15.1 0.429 58.0, 193.0 -0.56
BTBR T+ Itpr3tf/J f 109.0 34.5   8 12.2 0.316 63.0, 167.0 -0.4
BTBR T+ Itpr3tf/J m 131.0 63.3   7 23.9 0.483 79.0, 231.0 -0.21
BUB/BnJ f 178.0 71.8   10 22.7 0.404 94.0, 297.0 -0.03
BUB/BnJ m 94.4 23.5   5 10.5 0.249 63.0, 120.0 -0.62
C3H/HeJ f 171.0 42.2   10 13.3 0.247 123.0, 236.0 -0.07
C3H/HeJ m 99.2 56.2   8 19.9 0.566 6.0, 190.0 -0.56
C57BL/10J f 92.0 27.2   9 9.08 0.296 57.0, 149.0 -0.49
C57BL/10J m 103.0 26.1   10 8.24 0.254 73.0, 151.0 -0.52
C57BL/6J f 152.0 37.3   10 11.8 0.245 83.0, 217.0 -0.17
C57BL/6J m 216.0 100.0   10 31.7 0.463 90.0, 369.0 0.75
C57BLKS/J f 204.0 217.0   9 72.2 1.06 76.0, 777.0 0.11
C57BLKS/J m 117.0 27.3   5 12.2 0.234 79.1, 149.0 -0.36
C57BR/cdJ f 255.0 85.1   10 26.9 0.334 150.0, 425.0 0.39
C57BR/cdJ m 160.0 41.1   10 13.0 0.256 80.0, 204.0 0.12
C57L/J f 144.0 43.9   10 13.9 0.306 83.0, 236.0 -0.21
C57L/J m 142.0 50.2   10 15.9 0.353 72.0, 215.0 -0.08
C58/J f 423.0 154.0   5 68.9 0.365 229.0, 635.0 1.3
C58/J m 279.0 48.7   7 18.4 0.174 229.0, 333.0 1.46
CAST/EiJ f 368.0 142.0   9 47.2 0.385 240.0, 692.0 1.0
CAST/EiJ m 342.0 228.0   8 80.6 0.666 147.0, 702.0 2.17
CBA/J f 71.8 38.2   8 13.5 0.533 -0.6
CBA/J m 74.1 18.5   8 6.55 0.25 57.0, 108.0 -0.85
CZECHII/EiJ f 68.5 39.8   11 12.0 0.58 -0.62
CZECHII/EiJ m 70.0 54.8   9 18.3 0.783 19.0, 195.0 -0.89
DBA/1J f 62.3 14.3   7 5.41 0.23 32.0, 74.0 -0.65
DBA/1J m 68.5 23.2   8 8.2 0.339 41.0, 106.0 -0.91
DBA/2J f 38.7 15.9   9 5.29 0.41 12.0, 61.0 -0.78
DBA/2J m 77.0 26.6   9 8.88 0.346 42.0, 126.0 -0.81
FVB/NJ f 128.0 26.9   8 9.5 0.209 94.0, 170.0 -0.3
FVB/NJ m 187.0 48.5   5 21.7 0.259 132.0, 264.0 0.42
I/LnJ f 193.0 45.0   5 20.1 0.233 148.0, 242.0 0.05
JF1/MsJ f 133.0 54.1   10 17.1 0.406 71.0, 272.0 -0.27
JF1/MsJ m 310.0 278.0   7 105.0 0.897 79.0, 892.0 1.81
KK/HlJ f 168.0 67.8   7 25.6 0.404 115.0, 314.0 -0.08
LP/J f 80.7 20.3   10 6.41 0.251 39.0, 118.0 -0.55
LP/J m 67.6 38.3   10 12.1 0.566 -0.92
MA/MyJ f 280.0 52.4   10 16.6 0.187 214.0, 363.0 0.52
MA/MyJ m 169.0 37.3   10 11.8 0.221 130.0, 245.0 0.22
MOLF/EiJ f 1168.0 203.0   6 83.0 0.174 831.0, 1435.0 5.32
MSM/MsJ f 30.0 24.9   8 8.82 0.831 8.0, 81.0 -0.83
MSM/MsJ m 46.6 21.4   11 6.45 0.459 9.0, 78.0 -1.16
NOD/ShiLtJ f 196.0 31.1   6 12.7 0.159 160.0, 241.0 0.07
NOD/ShiLtJ m 321.0 369.0   6 151.0 1.15 72.0, 1052.0 1.93
NON/ShiLtJ f 208.0 56.4   10 17.8 0.271 109.0, 277.0 0.13
NON/ShiLtJ m 185.0 55.0   12 15.9 0.297 114.0, 288.0 0.4
NZB/BlNJ f 187.0 52.8   11 15.9 0.282 129.0, 282.0 0.02
NZB/BlNJ m 188.0 45.7   9 15.2 0.243 107.0, 247.0 0.43
NZW/LacJ f 111.0 28.0   9 9.32 0.251 68.0, 162.0 -0.39
NZW/LacJ m 115.0 44.0   8 15.6 0.383 42.0, 183.0 -0.39
PERA/EiJ f 123.0 52.2   9 17.4 0.424 -0.32
PERA/EiJ m 144.0 37.3   8 13.2 0.26 108.0, 204.0 -0.06
PL/J f 163.0 79.7   10 25.2 0.49 65.0, 287.0 -0.11
PWK/PhJ m 57.5 26.8   8 9.48 0.466 4.0, 85.0 -1.03
RF/J f 90.3 52.9   7 20.0 0.586 39.0, 189.0 -0.5
RIIIS/J f 144.0 41.7   6 17.0 0.29 87.0, 212.0 -0.21
RIIIS/J m 74.4 35.9   8 12.7 0.482 18.0, 116.0 -0.84
SEA/GnJ f 97.9 34.1   9 11.4 0.349 51.0, 177.0 -0.46
SEA/GnJ m 98.7 24.0   7 9.09 0.244 69.0, 128.0 -0.57
SJL/J f 75.3 20.3   9 6.78 0.27 50.0, 100.0 -0.58
SJL/J m 141.0 55.4   12 16.0 0.392 25.0, 246.0 -0.09
SM/J f 174.0 63.7   8 22.5 0.367 99.0, 276.0 -0.05
SM/J m 191.0 114.0   9 37.8 0.595 54.0, 407.0 0.47
SPRET/EiJ f 130.0 94.4   4 47.2 0.729 45.0, 226.0 -0.29
SPRET/EiJ m 85.2 54.6   5 24.4 0.641 38.0, 152.0 -0.72
SWR/J f 163.0 20.2   8 7.13 0.124 133.0, 190.0 -0.11
SWR/J m 134.0 36.6   7 13.9 0.273 97.0, 189.0 -0.17
WSB/EiJ f 190.0 81.9   8 28.9 0.432 103.0, 372.0 0.04
WSB/EiJ m 148.0 21.9   9 7.29 0.147 120.0, 180.0 -0.02


  LEAST SQUARES MEANS (MODEL-ADJUSTED)
Strain Sex Mean SEM UpperCL LowerCL
129S1/SvImJ f 107.9 28.5533 163.9957 51.8043
129S1/SvImJ m 79.5556 30.0978 138.6856 20.4255
A/J f 458.9 28.5533 514.9957 402.8043
A/J m 411.75 31.9235 474.4669 349.0331
BALB/cByJ f 89.6364 27.2245 143.1215 36.1512
BALB/cByJ m 99.375 31.9235 162.0919 36.6581
BTBR T+ Itpr3tf/J f 109.25 31.9235 171.9669 46.5331
BTBR T+ Itpr3tf/J m 130.8571 34.1277 197.9043 63.81
BUB/BnJ f 177.9 28.5533 233.9957 121.8043
BUB/BnJ m 94.4 40.3804 173.7313 15.0687
C3H/HeJ f 171.1 28.5533 227.1957 115.0043
C3H/HeJ m 99.25 31.9235 161.9669 36.5331
C57BL/10J f 92.0 30.0978 151.13 32.87
C57BL/10J m 102.6 28.5533 158.6957 46.5043
C57BL/6J f 152.4 28.5533 208.4957 96.3043
C57BL/6J m 216.1 28.5533 272.1957 160.0043
C57BLKS/J f 204.4444 30.0978 263.5745 145.3144
C57BLKS/J m 116.54 40.3804 195.8713 37.2087
C57BR/cdJ f 254.6 28.5533 310.6957 198.5043
C57BR/cdJ m 160.4 28.5533 216.4957 104.3043
C57L/J f 143.6 28.5533 199.6957 87.5043
C57L/J m 142.5 28.5533 198.5957 86.4043
C58/J f 422.6 40.3804 501.9313 343.2687
C58/J m 279.2857 34.1277 346.3329 212.2385
CAST/EiJ f 368.3333 30.0978 427.4634 309.2033
CAST/EiJ m 342.375 31.9235 405.0919 279.6581
CBA/J f 71.75 31.9235 134.4669 9.0331
CBA/J m 74.125 31.9235 136.8419 11.4081
CZECHII/EiJ f 68.5455 27.2245 122.0306 15.0603
CZECHII/EiJ m 70.0 30.0978 129.13 10.87
DBA/1J f 62.2857 34.1277 129.3329 0.0
DBA/1J m 68.5 31.9235 131.2169 5.7831
DBA/2J f 38.6667 30.0978 97.7967 0.0
DBA/2J m 77.0 30.0978 136.13 17.87
FVB/NJ f 128.25 31.9235 190.9669 65.5331
FVB/NJ m 187.0 40.3804 266.3313 107.6687
JF1/MsJ f 133.3 28.5533 189.3957 77.2043
JF1/MsJ m 310.0 34.1277 377.0472 242.9528
LP/J f 80.7 28.5533 136.7957 24.6043
LP/J m 67.6 28.5533 123.6957 11.5043
MA/MyJ f 280.4 28.5533 336.4957 224.3043
MA/MyJ m 168.7 28.5533 224.7957 112.6043
MSM/MsJ f 30.0 31.9235 92.7169 0.0
MSM/MsJ m 46.6364 27.2245 100.1215 0.0
NOD/ShiLtJ f 195.8333 36.8621 268.2526 123.4141
NOD/ShiLtJ m 321.1667 36.8621 393.5859 248.7474
NON/ShiLtJ f 208.1 28.5533 264.1957 152.0043
NON/ShiLtJ m 185.4167 26.0654 236.6248 134.2085
NZB/BlNJ f 187.0909 27.2245 240.5761 133.6058
NZB/BlNJ m 187.7778 30.0978 246.9078 128.6477
NZW/LacJ f 111.4444 30.0978 170.5745 52.3144
NZW/LacJ m 115.0 31.9235 177.7169 52.2831
PERA/EiJ f 123.1111 30.0978 182.2412 63.9811
PERA/EiJ m 143.5 31.9235 206.2169 80.7831
RIIIS/J f 143.5 36.8621 215.9192 71.0808
RIIIS/J m 74.375 31.9235 137.0919 11.6581
SEA/GnJ f 97.8889 30.0978 157.0189 38.7588
SEA/GnJ m 98.7 34.1277 165.7472 31.6528
SJL/J f 75.3333 30.0978 134.4634 16.2033
SJL/J m 141.3333 26.0654 192.5415 90.1252
SM/J f 173.5 31.9235 236.2169 110.7831
SM/J m 190.8889 30.0978 250.0189 131.7588
SPRET/EiJ f 129.5 45.1467 218.1951 40.8049
SPRET/EiJ m 85.2 40.3804 164.5313 5.8687
SWR/J f 162.875 31.9235 225.5919 100.1581
SWR/J m 134.2857 34.1277 201.3329 67.2385
WSB/EiJ f 189.5 31.9235 252.2169 126.7831
WSB/EiJ m 148.3333 30.0978 207.4634 89.2033


  LEAST SQUARES MEANS (MODEL-ADJUSTED), SEXES COMBINED
Strain Sex Mean SEM UpperCL LowerCL
129S1/SvImJ both 93.7278 20.7435 134.4804 52.9752
A/J both 435.325 21.4149 477.3968 393.2532
BALB/cByJ both 94.5057 20.9779 135.7188 53.2926
BTBR T+ Itpr3tf/J both 120.0536 23.3656 165.9576 74.1495
BUB/BnJ both 136.15 24.7278 184.7303 87.5697
C3H/HeJ both 135.175 21.4149 177.2468 93.1032
C57BL/10J both 97.3 20.7435 138.0526 56.5474
C57BL/6J both 184.25 20.1902 223.9156 144.5844
C57BLKS/J both 160.4922 25.1816 209.964 111.0205
C57BR/cdJ both 207.5 20.1902 247.1656 167.8344
C57L/J both 143.05 20.1902 182.7156 103.3844
C58/J both 350.9429 26.4352 402.8774 299.0083
CAST/EiJ both 355.3542 21.9373 398.4522 312.2561
CBA/J both 72.9375 22.5733 117.285 28.59
CZECHII/EiJ both 69.2727 20.2919 109.1382 29.4073
DBA/1J both 65.3929 23.3656 111.2969 19.4888
DBA/2J both 57.8333 21.2823 99.6446 16.0221
FVB/NJ both 157.625 25.7376 208.189 107.061
JF1/MsJ both 221.65 22.2485 265.3594 177.9406
LP/J both 74.15 20.1902 113.8156 34.4844
MA/MyJ both 224.55 20.1902 264.2156 184.8844
MSM/MsJ both 38.3182 20.9779 79.5313 0.0
NOD/ShiLtJ both 258.5 26.0654 309.7081 207.2919
NON/ShiLtJ both 196.7583 19.3306 234.7353 158.7814
NZB/BlNJ both 187.4343 20.2919 227.2998 147.5689
NZW/LacJ both 113.2222 21.9373 156.3203 70.1242
PERA/EiJ both 133.3056 21.9373 176.4036 90.2075
RIIIS/J both 108.9375 24.382 156.8383 61.0367
SEA/GnJ both 98.2944 22.7518 142.9926 53.5963
SJL/J both 108.3333 19.9078 147.4442 69.2225
SM/J both 182.1944 21.9373 225.2925 139.0964
SPRET/EiJ both 107.35 30.2853 166.8485 47.8515
SWR/J both 148.5804 23.3656 194.4844 102.6763
WSB/EiJ both 168.9167 21.9373 212.0147 125.8186




  GWAS USING LINEAR MIXED MODELS