Project measure / variable:   Paigen2   HDLC_fat17

ID, description, units MPD:9907   HDLC_fat17   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 - HDL cholesterol (plasma) after 17wks on diet



  MEASURE SUMMARY
Measure Summary FemaleMale
Number of strains tested40 strains36 strains
Mean of the strain means83.0   mg/dL 92.5   mg/dL
Median of the strain means80.8   mg/dL 88.5   mg/dL
SD of the strain means± 34.2 ± 30.5
Coefficient of variation (CV)0.412 0.330
Min–max range of strain means35.4   –   172   mg/dL 11.2   –   162   mg/dL
Mean sample size per strain8.7   mice 8.4   mice


  ANOVA, Q-Q NORMALITY ASSESSMENT
ANOVA summary      
FactorDFSum of squaresMean sum of squaresF valuep value (Pr>F)
sex 1 15367.5875 15367.5875 27.8939 < 0.0001
strain 34 561111.4814 16503.2789 29.9553 < 0.0001
sex:strain 34 79366.9275 2334.3214 4.237 < 0.0001
Residuals 529 291442.4554 550.9309


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 114.0 14.9   10 4.7 0.13 85.0, 140.0 0.91
129S1/SvImJ m 162.0 24.2   9 8.06 0.149 108.0, 195.0 2.27
A/J f 97.8 51.7   10 16.3 0.528 8.0, 172.0 0.43
A/J m 87.2 44.8   9 14.9 0.514 5.0, 144.0 -0.17
AKR/J f 91.7 31.1   12 8.98 0.339 11.0, 126.0 0.25
BALB/cByJ f 76.5 6.95   11 2.09 0.0908 63.0, 86.0 -0.19
BALB/cByJ m 95.1 24.2   8 8.55 0.254 75.0, 144.0 0.08
BTBR T+ Itpr3tf/J f 68.8 22.2   8 7.84 0.322 22.0, 101.0 -0.41
BTBR T+ Itpr3tf/J m 67.3 13.0   7 4.9 0.193 50.0, 87.0 -0.83
BUB/BnJ f 46.8 16.0   10 5.05 0.342 21.0, 64.0 -1.06
BUB/BnJ m 63.4 14.1   5 6.31 0.223 51.0, 85.0 -0.95
C3H/HeJ f 67.1 11.9   10 3.76 0.177 56.0, 96.0 -0.46
C3H/HeJ m 117.0 27.5   8 9.71 0.234 65.0, 152.0 0.8
C57BL/10J f 52.1 7.27   9 2.42 0.14 44.0, 63.0 -0.9
C57BL/10J m 69.6 14.1   10 4.45 0.202 41.0, 87.0 -0.75
C57BL/6J f 47.1 8.27   10 2.61 0.175 34.0, 57.0 -1.05
C57BL/6J m 55.6 15.9   10 5.04 0.286 35.0, 83.0 -1.21
C57BLKS/J f 57.8 21.3   9 7.09 0.368 20.0, 84.0 -0.74
C57BLKS/J m 88.3 12.5   5 5.58 0.141 75.6, 107.0 -0.14
C57BR/cdJ f 59.0 9.1   10 2.88 0.154 49.0, 75.0 -0.7
C57BR/cdJ m 84.5 23.5   10 7.42 0.278 56.0, 127.0 -0.26
C57L/J f 54.8 11.5   10 3.63 0.21 37.0, 79.0 -0.82
C57L/J m 60.4 9.83   10 3.11 0.163 47.0, 76.0 -1.05
C58/J f 110.0 18.2   5 8.14 0.166 88.0, 131.0 0.79
C58/J m 74.0 32.0   7 12.1 0.432 28.0, 116.0 -0.61
CAST/EiJ f 41.0 10.3   9 3.44 0.252 29.0, 63.0 -1.23
CAST/EiJ m 67.9 9.16   8 3.24 0.135 55.0, 81.0 -0.81
CBA/J f 40.5 27.7   8 9.8 0.685 16.0, 104.0 -1.24
CBA/J m 92.2 13.8   8 4.86 0.149 72.0, 116.0 -0.01
CZECHII/EiJ f 64.1 12.2   11 3.67 0.19 45.0, 80.0 -0.55
CZECHII/EiJ m 64.8 14.1   9 4.72 0.218 49.0, 86.0 -0.91
DBA/1J f 42.6 12.5   7 4.73 0.294 28.0, 60.0 -1.18
DBA/1J m 72.8 19.9   8 7.03 0.273 44.0, 101.0 -0.65
DBA/2J f 62.9 12.3   9 4.11 0.196 48.0, 92.0 -0.59
DBA/2J m 78.9 12.7   9 4.22 0.161 66.0, 100.0 -0.45
FVB/NJ f 96.5 16.5   8 5.83 0.171 62.0, 113.0 0.39
FVB/NJ m 93.2 38.9   6 15.9 0.418 52.0, 166.0 0.02
I/LnJ f 35.4 15.6   5 6.96 0.44 21.0, 62.0 -1.39
JF1/MsJ f 85.9 19.9   10 6.31 0.232 60.0, 129.0 0.09
JF1/MsJ m 88.7 31.0   7 11.7 0.35 37.0, 133.0 -0.13
KK/HlJ f 101.0 8.44   7 3.19 0.0832 87.0, 112.0 0.53
LP/J f 110.0 18.4   10 5.83 0.168 79.0, 135.0 0.79
LP/J m 133.0 17.7   10 5.6 0.133 106.0, 160.0 1.33
MA/MyJ f 137.0 29.3   10 9.26 0.214 100.0, 198.0 1.58
MA/MyJ m 132.0 18.4   10 5.8 0.139 102.0, 158.0 1.29
MOLF/EiJ f 59.1 23.8   7 8.99 0.402 16.0, 95.0 -0.7
MOLF/EiJ m 11.2 5.56   9 1.85 0.496 7.0, 25.0 -2.66
MSM/MsJ f 96.0 25.3   8 8.96 0.264 57.0, 134.0 0.38
MSM/MsJ m 90.2 14.7   11 4.44 0.163 62.0, 113.0 -0.08
NOD/ShiLtJ f 143.0 44.4   6 18.1 0.312 109.0, 229.0 1.75
NOD/ShiLtJ m 146.0 44.9   6 18.3 0.307 93.0, 228.0 1.75
NON/ShiLtJ f 91.0 24.2   10 7.67 0.266 62.0, 139.0 0.23
NON/ShiLtJ m 93.2 23.5   12 6.79 0.252 49.0, 140.0 0.02
NZB/BlNJ f 172.0 30.7   11 9.25 0.178 114.0, 216.0 2.6
NZB/BlNJ m 143.0 26.6   9 8.87 0.186 97.0, 182.0 1.65
NZW/LacJ f 100.0 17.5   9 5.84 0.174 79.0, 142.0 0.5
NZW/LacJ m 130.0 19.8   8 7.01 0.153 100.0, 158.0 1.23
PERA/EiJ f 159.0 39.5   9 13.2 0.249 93.0, 202.0 2.22
PERA/EiJ m 126.0 20.5   8 7.25 0.163 91.0, 160.0 1.1
PL/J f 95.5 21.4   10 6.77 0.224 66.0, 125.0 0.37
PWK/PhJ m 106.0 13.7   8 4.86 0.13 85.0, 124.0 0.44
RF/J f 123.0 32.1   7 12.1 0.26 83.0, 182.0 1.17
RIIIS/J f 85.0 23.6   6 9.65 0.278 58.0, 117.0 0.06
RIIIS/J m 81.6 18.2   8 6.45 0.224 49.0, 108.0 -0.36
SEA/GnJ f 47.4 10.2   9 3.39 0.214 36.0, 65.0 -1.04
SEA/GnJ m 94.6 12.7   7 4.79 0.134 79.2, 111.0 0.07
SJL/J f 59.9 7.34   9 2.45 0.123 47.0, 74.0 -0.67
SJL/J m 84.8 16.9   12 4.88 0.199 62.0, 117.0 -0.25
SM/J f 60.2 13.8   8 4.87 0.229 46.0, 88.0 -0.67
SM/J m 69.7 28.2   9 9.39 0.404 41.0, 117.0 -0.75
SPRET/EiJ f 124.0 96.8   4 48.4 0.778 26.0, 233.0 1.2
SPRET/EiJ m 132.0 66.6   5 29.8 0.504 60.0, 196.0 1.29
SWR/J f 51.1 15.3   8 5.4 0.299 36.0, 84.0 -0.93
SWR/J m 79.0 13.9   7 5.25 0.176 62.0, 96.0 -0.44
WSB/EiJ f 92.8 21.7   8 7.66 0.234 70.0, 123.0 0.29
WSB/EiJ m 96.0 11.3   9 3.76 0.118 78.0, 116.0 0.11


  LEAST SQUARES MEANS (MODEL-ADJUSTED)
Strain Sex Mean SEM UpperCL LowerCL
129S1/SvImJ f 114.3 7.4225 128.8811 99.7189
129S1/SvImJ m 162.3333 7.824 177.7032 146.9635
A/J f 97.8 7.4225 112.3811 83.2189
A/J m 87.2222 7.824 102.5921 71.8524
BALB/cByJ f 76.5455 7.077 90.448 62.6429
BALB/cByJ m 95.125 8.2986 111.4272 78.8228
BTBR T+ Itpr3tf/J f 68.75 8.2986 85.0522 52.4478
BTBR T+ Itpr3tf/J m 67.2857 8.8716 84.7135 49.8579
BUB/BnJ f 46.8 7.4225 61.3811 32.2189
BUB/BnJ m 63.4 10.497 84.0208 42.7792
C3H/HeJ f 67.1 7.4225 81.6811 52.5189
C3H/HeJ m 117.375 8.2986 133.6772 101.0728
C57BL/10J f 52.1111 7.824 67.481 36.7412
C57BL/10J m 69.6 7.4225 84.1811 55.0189
C57BL/6J f 47.1 7.4225 61.6811 32.5189
C57BL/6J m 55.6 7.4225 70.1811 41.0189
C57BLKS/J f 57.7778 7.824 73.1476 42.4079
C57BLKS/J m 88.26 10.497 108.8808 67.6392
C57BR/cdJ f 59.0 7.4225 73.5811 44.4189
C57BR/cdJ m 84.5 7.4225 99.0811 69.9189
C57L/J f 54.8 7.4225 69.3811 40.2189
C57L/J m 60.4 7.4225 74.9811 45.8189
C58/J f 109.8 10.497 130.4208 89.1792
C58/J m 74.0 8.8716 91.4278 56.5722
CAST/EiJ f 41.0 7.824 56.3699 25.6301
CAST/EiJ m 67.875 8.2986 84.1772 51.5728
CBA/J f 40.5 8.2986 56.8022 24.1978
CBA/J m 92.25 8.2986 108.5522 75.9478
CZECHII/EiJ f 64.0909 7.077 77.9935 50.1883
CZECHII/EiJ m 64.7778 7.824 80.1476 49.4079
DBA/1J f 42.5714 8.8716 59.9992 25.1436
DBA/1J m 72.75 8.2986 89.0522 56.4478
DBA/2J f 62.8889 7.824 78.2588 47.519
DBA/2J m 78.8889 7.824 94.2588 63.519
FVB/NJ f 96.5 8.2986 112.8022 80.1978
FVB/NJ m 93.1667 9.5824 111.9908 74.3425
JF1/MsJ f 85.9 7.4225 100.4811 71.3189
JF1/MsJ m 88.7143 8.8716 106.1421 71.2865
LP/J f 109.8 7.4225 124.3811 95.2189
LP/J m 133.3 7.4225 147.8811 118.7189
MA/MyJ f 136.7 7.4225 151.2811 122.1189
MA/MyJ m 132.5 7.4225 147.0811 117.9189
MOLF/EiJ f 59.1429 8.8716 76.5707 41.7151
MOLF/EiJ m 11.2222 7.824 26.5921 0.0
MSM/MsJ f 96.0 8.2986 112.3022 79.6978
MSM/MsJ m 90.1818 7.077 104.0844 76.2792
NOD/ShiLtJ f 142.6667 9.5824 161.4908 123.8425
NOD/ShiLtJ m 146.1667 9.5824 164.9908 127.3425
NON/ShiLtJ f 91.0 7.4225 105.5811 76.4189
NON/ShiLtJ m 93.25 6.7758 106.5607 79.9393
NZB/BlNJ f 172.2727 7.077 186.1753 158.3702
NZB/BlNJ m 143.3333 7.824 158.7032 127.9635
NZW/LacJ f 100.3333 7.824 115.7032 84.9635
NZW/LacJ m 129.5 8.2986 145.8022 113.1978
PERA/EiJ f 158.6667 7.824 174.0365 143.2968
PERA/EiJ m 125.75 8.2986 142.0522 109.4478
RIIIS/J f 85.0 9.5824 103.8242 66.1758
RIIIS/J m 81.625 8.2986 97.9272 65.3228
SEA/GnJ f 47.4444 7.824 62.8143 32.0746
SEA/GnJ m 94.5857 8.8716 112.0135 77.1579
SJL/J f 59.8889 7.824 75.2588 44.519
SJL/J m 84.8333 6.7758 98.144 71.5226
SM/J f 60.25 8.2986 76.5522 43.9478
SM/J m 69.6667 7.824 85.0365 54.2968
SPRET/EiJ f 124.5 11.736 147.5548 101.4452
SPRET/EiJ m 132.2 10.497 152.8208 111.5792
SWR/J f 51.125 8.2986 67.4272 34.8228
SWR/J m 79.0 8.8716 96.4278 61.5722
WSB/EiJ f 92.75 8.2986 109.0522 76.4478
WSB/EiJ m 96.0 7.824 111.3699 80.6301


  LEAST SQUARES MEANS (MODEL-ADJUSTED), SEXES COMBINED
Strain Sex Mean SEM UpperCL LowerCL
129S1/SvImJ both 138.3167 5.3923 148.9096 127.7237
A/J both 92.5111 5.3923 103.1041 81.9182
BALB/cByJ both 85.8352 5.4532 96.5479 75.1226
BTBR T+ Itpr3tf/J both 68.0179 6.0739 79.9499 56.0859
BUB/BnJ both 55.1 6.428 67.7276 42.4724
C3H/HeJ both 92.2375 5.5669 103.1734 81.3016
C57BL/10J both 60.8556 5.3923 71.4485 50.2626
C57BL/6J both 51.35 5.2485 61.6604 41.0396
C57BLKS/J both 73.0189 6.546 85.8782 60.1595
C57BR/cdJ both 71.75 5.2485 82.0604 61.4396
C57L/J both 57.6 5.2485 67.9104 47.2896
C58/J both 91.9 6.8719 105.3995 78.4005
CAST/EiJ both 54.4375 5.7027 65.6401 43.2349
CBA/J both 66.375 5.868 77.9024 54.8476
CZECHII/EiJ both 64.4343 5.2749 74.7967 54.072
DBA/1J both 57.6607 6.0739 69.5927 45.7287
DBA/2J both 70.8889 5.5324 81.757 60.0207
FVB/NJ both 94.8333 6.3381 107.2844 82.3823
JF1/MsJ both 87.3071 5.7835 98.6687 75.9456
LP/J both 121.55 5.2485 131.8604 111.2396
MA/MyJ both 134.6 5.2485 144.9104 124.2896
MOLF/EiJ both 35.1825 5.9144 46.8011 23.564
MSM/MsJ both 93.0909 5.4532 103.8036 82.3783
NOD/ShiLtJ both 144.4167 6.7758 157.7274 131.106
NON/ShiLtJ both 92.125 5.025 101.9965 82.2535
NZB/BlNJ both 157.803 5.2749 168.1654 147.4407
NZW/LacJ both 114.9167 5.7027 126.1193 103.714
PERA/EiJ both 142.2083 5.7027 153.411 131.0057
RIIIS/J both 83.3125 6.3381 95.7635 70.8615
SEA/GnJ both 71.0151 5.9144 82.6336 59.3966
SJL/J both 72.3611 5.1751 82.5273 62.1949
SM/J both 64.9583 5.7027 76.161 53.7557
SPRET/EiJ both 128.35 7.8727 143.8156 112.8844
SWR/J both 65.0625 6.0739 76.9945 53.1305
WSB/EiJ both 94.375 5.7027 105.5776 83.1724




  GWAS USING LINEAR MIXED MODELS