Phenotype measure:   Paigen1   totHCC

ID, description, units MPD:2928   totHCC   hepatic cholesterol concentration (total per g liver)   [mg]
high-fat diet study
Data set, strains Paigen1   inbred   43 strains     sex: both     age: 15-19wks
Procedure lipid profile
Ontology mappings

  STRAIN COMPARISON PLOT
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Paigen1 - hepatic cholesterol concentration (total per g liver)



  MEASURE SUMMARY
Measure Summary FemaleMale
Number of strains tested43 strains42 strains
Mean of the strain means40.8   mg 35.2   mg
Median of the strain means40.5   mg 35.2   mg
SD of the strain means± 13.9 ± 13.9
Coefficient of variation (CV)0.340 0.393
Min–max range of strain means8.42   –   71.6   mg 7.23   –   67.3   mg
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 4865.0143 4865.0143 37.7918 < 0.0001
strain 41 111860.8803 2728.3142 21.1937 < 0.0001
sex:strain 41 18745.5566 457.2087 3.5516 < 0.0001
Residuals 629 80972.5072 128.7321


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 28.6 10.4   9 3.47 0.363 18.7, 49.0 -0.88
129S1/SvImJ m 34.4 9.62   9 3.21 0.28 18.1, 48.3 -0.06
A/J f 60.4 24.3   9 8.11 0.403 19.9, 83.6 1.41
A/J m 35.0 12.5   9 4.16 0.356 19.6, 56.6 -0.02
AKR/J f 32.1 4.86   9 1.62 0.152 26.8, 41.4 -0.63
AKR/J m 19.6 2.75   9 0.917 0.14 14.8, 22.9 -1.13
BALB/cJ f 33.7 14.9   10 4.73 0.444 19.1, 60.0 -0.51
BALB/cJ m 35.4 11.7   10 3.68 0.329 22.7, 57.3 0.01
BPH/2J f 37.9 5.32   10 1.68 0.14 31.2, 46.0 -0.21
BPH/2J m 24.7 3.8   8 1.34 0.154 19.8, 31.8 -0.76
BPL/1J f 43.3 7.83   10 2.47 0.181 33.3, 55.9 0.18
BPL/1J m 34.9 11.1   10 3.51 0.318 21.4, 54.6 -0.02
BPN/3J f 26.2 3.37   9 1.12 0.129 18.6, 30.8 -1.05
BPN/3J m 17.7 3.01   8 1.06 0.17 12.3, 21.8 -1.26
BTBR T+ Itpr3tf/J f 30.1 6.29   3 3.63 0.209 23.1, 35.2 -0.77
BTBR T+ Itpr3tf/J m 24.0 7.49   10 2.37 0.312 13.1, 36.5 -0.81
C3H/HeJ f 37.2 6.68   10 2.11 0.18 26.3, 47.1 -0.26
C3H/HeJ m 46.2 10.7   9 3.56 0.231 31.8, 66.5 0.79
C57BL/10J f 35.1 9.09   10 2.88 0.259 23.8, 53.7 -0.41
C57BL/10J m 43.2 10.7   10 3.38 0.247 28.4, 59.6 0.58
C57BL/6J f 42.3 11.5   10 3.64 0.272 24.6, 59.3 0.11
C57BL/6J m 41.3 8.67   10 2.74 0.21 28.0, 58.0 0.44
C57BLKS/J f 40.5 4.83   8 1.71 0.12 30.9, 45.2 -0.02
C57BLKS/J m 29.2 11.2   7 4.22 0.383 18.2, 48.9 -0.43
C57BR/cdJ f 36.5 14.5   10 4.59 0.398 16.5, 55.1 -0.31
C57BR/cdJ m 18.7 3.43   10 1.09 0.184 12.1, 23.6 -1.19
C57L/J f 33.5 3.62   9 1.21 0.108 28.2, 38.2 -0.53
C57L/J m 15.6 1.18   9 0.395 0.076 14.2, 17.4 -1.42
C58/J f 42.3 11.3   9 3.77 0.267 25.4, 56.5 0.11
C58/J m 42.9 13.6   10 4.29 0.316 18.4, 67.2 0.55
CAST/EiJ f 36.2 12.7   7 4.8 0.351 23.7, 58.0 -0.33
CAST/EiJ m 39.2 15.8   8 5.6 0.403 19.1, 64.2 0.29
CBA/J f 26.3 6.86   10 2.17 0.261 17.6, 36.6 -1.05
CBA/J m 27.1 7.13   9 2.38 0.263 20.1, 39.0 -0.59
CE/J f 62.7 25.7   9 8.56 0.41 21.6, 95.2 1.57
CE/J m 24.9 9.67   7 3.66 0.389 17.0, 39.7 -0.74
CZECHII/EiJ f 40.7 13.9   6 5.67 0.341 25.5, 65.3 -0.01
CZECHII/EiJ m 39.2 4.61   5 2.06 0.118 34.3, 46.6 0.29
DBA/1J f 23.5 5.09   10 1.61 0.217 15.2, 30.2 -1.25
DBA/1J m 20.6 3.81   8 1.35 0.185 15.9, 26.3 -1.05
DBA/2J f 16.9 2.44   10 0.771 0.144 13.2, 22.1 -1.72
DBA/2J m 16.4 2.75   8 0.974 0.168 12.4, 20.4 -1.36
FVB/NJ f 35.1 14.0   8 4.96 0.399 18.8, 60.5 -0.41
FVB/NJ m 42.4 12.3   3 7.09 0.29 32.2, 56.0 0.52
I/LnJ f 30.5 9.92   10 3.14 0.325 18.4, 45.6 -0.74
I/LnJ m 29.6 11.0   10 3.47 0.371 15.8, 49.1 -0.41
KK/HlJ f 48.7 6.13   8 2.17 0.126 39.1, 59.4 0.57
KK/HlJ m 45.4 16.3   9 5.42 0.358 29.8, 70.9 0.74
LP/J f 23.0 2.46   9 0.821 0.107 20.3, 27.1 -1.28
LP/J m 23.8 6.41   10 2.03 0.269 12.7, 31.0 -0.82
MOLF/EiJ f 54.5 18.1   9 6.02 0.331 31.4, 78.6 0.98
MOLF/EiJ m 60.7 9.23   10 2.92 0.152 49.0, 74.5 1.84
NOD/ShiLtJ f 46.3 17.1   9 5.69 0.369 24.5, 65.8 0.39
NOD/ShiLtJ m 25.7 6.64   6 2.71 0.259 18.7, 36.5 -0.69
NON/ShiLtJ f 32.0 9.53   9 3.18 0.298 23.8, 49.0 -0.64
NON/ShiLtJ m 41.2 5.27   10 1.67 0.128 32.0, 50.6 0.43
NZB/BlNJ f 60.2 9.6   10 3.04 0.16 46.7, 74.1 1.39
NZB/BlNJ m 41.0 20.9   8 7.39 0.51 23.1, 69.9 0.42
NZW/LacJ f 57.8 14.4   8 5.1 0.249 29.1, 74.3 1.22
NZW/LacJ m 60.5 11.4   10 3.59 0.188 38.4, 76.4 1.82
PERA/EiJ f 50.7 16.9   8 5.96 0.332 30.9, 67.9 0.71
PERA/EiJ m 44.0 14.7   4 7.34 0.334 33.5, 65.3 0.63
P/J f 49.9 31.2   10 9.86 0.625 16.9, 104.0 0.65
P/J m 58.8 14.7   10 4.64 0.249 30.1, 75.6 1.7
PL/J f 41.5 6.41   9 2.14 0.155 33.1, 52.7 0.05
PL/J m 40.4 14.8   3 8.54 0.366 23.3, 49.3 0.37
RBF/DnJ f 54.1 7.46   9 2.49 0.138 42.0, 64.3 0.95
RBF/DnJ m 55.7 10.3   6 4.19 0.184 44.7, 73.7 1.48
RF/J f 59.6 11.9   10 3.75 0.199 42.6, 83.2 1.35
RF/J m 40.3 3.53   6 1.44 0.0878 36.0, 45.0 0.37
RIIIS/J f 40.7 16.0   9 5.32 0.393 19.2, 71.7 -0.01
RIIIS/J m 41.9 16.1   9 5.37 0.384 14.4, 71.8 0.48
SEA/GnJ f 63.0 17.3   8 6.11 0.275 30.3, 87.8 1.59
SEA/GnJ m 49.4 7.66   9 2.55 0.155 33.1, 58.0 1.02
SJL/J f 24.6 4.31   9 1.44 0.175 17.5, 30.8 -1.17
SJL/J m 19.4 4.01   9 1.34 0.206 12.9, 26.4 -1.14
SM/J f 40.7 6.11   8 2.16 0.15 32.3, 51.1 -0.01
SM/J m 30.6 5.38   6 2.2 0.176 22.3, 38.8 -0.33
SPRET/EiJ f 8.42 0.893   6 0.365 0.106 6.96, 9.62 -2.33
SPRET/EiJ m 7.23 1.35   5 0.603 0.187 5.83, 8.8 -2.02
SWR/J f 35.4 8.41   10 2.66 0.237 20.3, 43.6 -0.39
SWR/J m 23.5 3.48   8 1.23 0.148 17.0, 28.3 -0.85
WSB/EiJ f 71.6 10.5   9 3.49 0.146 56.2, 87.3 2.21
WSB/EiJ m 67.3 8.01   7 3.03 0.119 56.8, 80.9 2.32
YBR/EiJ f 61.8 12.2   5 5.44 0.197 47.2, 75.1 1.51


  LEAST SQUARES MEANS (MODEL-ADJUSTED)
Strain Sex Mean SEM UpperCL LowerCL
129S1/SvImJ f 28.6222 3.782 36.0491 21.1953
129S1/SvImJ m 34.4222 3.782 41.8491 26.9953
A/J f 60.4222 3.782 67.8491 52.9953
A/J m 35.0444 3.782 42.4713 27.6176
AKR/J f 32.0667 3.782 39.4936 24.6398
AKR/J m 19.5778 3.782 27.0047 12.1509
BALB/cJ f 33.7 3.5879 40.7458 26.6542
BALB/cJ m 35.41 3.5879 42.4558 28.3642
BPH/2J f 37.94 3.5879 44.9858 30.8942
BPH/2J m 24.6875 4.0114 32.5649 16.8101
BPL/1J f 43.34 3.5879 50.3858 36.2942
BPL/1J m 34.86 3.5879 41.9058 27.8142
BPN/3J f 26.2222 3.782 33.6491 18.7953
BPN/3J m 17.6625 4.0114 25.5399 9.7851
BTBR T+ Itpr3tf/J f 30.1333 6.5506 42.9971 17.2696
BTBR T+ Itpr3tf/J m 23.99 3.5879 31.0358 16.9442
C3H/HeJ f 37.18 3.5879 44.2258 30.1342
C3H/HeJ m 46.1556 3.782 53.5824 38.7287
C57BL/10J f 35.06 3.5879 42.1058 28.0142
C57BL/10J m 43.24 3.5879 50.2858 36.1942
C57BL/6J f 42.27 3.5879 49.3158 35.2242
C57BL/6J m 41.29 3.5879 48.3358 34.2442
C57BLKS/J f 40.45 4.0114 48.3274 32.5726
C57BLKS/J m 29.1571 4.2884 37.5784 20.7358
C57BR/cdJ f 36.5 3.5879 43.5458 29.4542
C57BR/cdJ m 18.66 3.5879 25.7058 11.6142
C57L/J f 33.4556 3.782 40.8824 26.0287
C57L/J m 15.5889 3.782 23.0158 8.162
C58/J f 42.3333 3.782 49.7602 34.9064
C58/J m 42.85 3.5879 49.8958 35.8042
CAST/EiJ f 36.1714 4.2884 44.5927 27.7501
CAST/EiJ m 39.25 4.0114 47.1274 31.3726
CBA/J f 26.32 3.5879 33.3658 19.2742
CBA/J m 27.1111 3.782 34.538 19.6842
CE/J f 62.6889 3.782 70.1158 55.262
CE/J m 24.8857 4.2884 33.307 16.4644
CZECHII/EiJ f 40.7167 4.632 49.8127 31.6206
CZECHII/EiJ m 39.2 5.0741 49.1642 29.2358
DBA/1J f 23.49 3.5879 30.5358 16.4442
DBA/1J m 20.6375 4.0114 28.5149 12.7601
DBA/2J f 16.89 3.5879 23.9358 9.8442
DBA/2J m 16.4125 4.0114 24.2899 8.5351
FVB/NJ f 35.15 4.0114 43.0274 27.2726
FVB/NJ m 42.3667 6.5506 55.2304 29.5029
I/LnJ f 30.51 3.5879 37.5558 23.4642
I/LnJ m 29.56 3.5879 36.6058 22.5142
KK/HlJ f 48.7 4.0114 56.5774 40.8226
KK/HlJ m 45.4333 3.782 52.8602 38.0064
LP/J f 23.0111 3.782 30.438 15.5842
LP/J m 23.84 3.5879 30.8858 16.7942
MOLF/EiJ f 54.5222 3.782 61.9491 47.0953
MOLF/EiJ m 60.72 3.5879 67.7658 53.6742
NOD/ShiLtJ f 46.3222 3.782 53.7491 38.8953
NOD/ShiLtJ m 25.6833 4.632 34.7794 16.5873
NON/ShiLtJ f 32.0333 3.782 39.4602 24.6064
NON/ShiLtJ m 41.24 3.5879 48.2858 34.1942
NZB/BlNJ f 60.18 3.5879 67.2258 53.1342
NZB/BlNJ m 40.975 4.0114 48.8524 33.0976
NZW/LacJ f 57.8 4.0114 65.6774 49.9226
NZW/LacJ m 60.54 3.5879 67.5858 53.4942
PERA/EiJ f 50.7125 4.0114 58.5899 42.8351
PERA/EiJ m 44.0 5.673 55.1403 32.8597
P/J f 49.92 3.5879 56.9658 42.8742
P/J m 58.77 3.5879 65.8158 51.7242
PL/J f 41.4667 3.782 48.8936 34.0398
PL/J m 40.3667 6.5506 53.2304 27.5029
RBF/DnJ f 54.0778 3.782 61.5047 46.6509
RBF/DnJ m 55.7167 4.632 64.8127 46.6206
RF/J f 59.62 3.5879 66.6658 52.5742
RF/J m 40.2667 4.632 49.3627 31.1706
RIIIS/J f 40.6556 3.782 48.0824 33.2287
RIIIS/J m 41.9 3.782 49.3269 34.4731
SEA/GnJ f 62.9625 4.0114 70.8399 55.0851
SEA/GnJ m 49.4444 3.782 56.8713 42.0176
SJL/J f 24.5889 3.782 32.0158 17.162
SJL/J m 19.4444 3.782 26.8713 12.0176
SM/J f 40.7125 4.0114 48.5899 32.8351
SM/J m 30.6333 4.632 39.7294 21.5373
SPRET/EiJ f 8.425 4.632 17.521 0.0
SPRET/EiJ m 7.232 5.0741 17.1962 0.0
SWR/J f 35.42 3.5879 42.4658 28.3742
SWR/J m 23.4625 4.0114 31.3399 15.5851
WSB/EiJ f 71.6111 3.782 79.038 64.1842
WSB/EiJ m 67.2571 4.2884 75.6784 58.8358


  LEAST SQUARES MEANS (MODEL-ADJUSTED), SEXES COMBINED
Strain Sex Mean SEM UpperCL LowerCL
129S1/SvImJ both 31.5222 2.6743 36.7738 26.2706
A/J both 47.7333 2.6743 52.9849 42.4817
AKR/J both 25.8222 2.6743 31.0738 20.5706
BALB/cJ both 34.555 2.537 39.5371 29.5729
BPH/2J both 31.3137 2.6909 36.5981 26.0294
BPL/1J both 39.1 2.537 44.0821 34.1179
BPN/3J both 21.9424 2.7566 27.3556 16.5291
BTBR T+ Itpr3tf/J both 27.0617 3.7344 34.3951 19.7282
C3H/HeJ both 41.6678 2.6066 46.7864 36.5491
C57BL/10J both 39.15 2.537 44.1321 34.1679
C57BL/6J both 41.78 2.537 46.7621 36.7979
C57BLKS/J both 34.8036 2.9361 40.5692 29.0379
C57BR/cdJ both 27.58 2.537 32.5621 22.5979
C57L/J both 24.5222 2.6743 29.7738 19.2706
C58/J both 42.5917 2.6066 47.7103 37.473
CAST/EiJ both 37.7107 2.9361 43.4764 31.945
CBA/J both 26.7156 2.6066 31.8342 21.5969
CE/J both 43.7873 2.8589 49.4015 38.1731
CZECHII/EiJ both 39.9583 3.4352 46.7041 33.2125
DBA/1J both 22.0638 2.6909 27.3481 16.7794
DBA/2J both 16.6513 2.6909 21.9356 11.3669
FVB/NJ both 38.7583 3.8406 46.3004 31.2163
I/LnJ both 30.035 2.537 35.0171 25.0529
KK/HlJ both 47.0667 2.7566 52.4799 41.6534
LP/J both 23.4256 2.6066 28.5442 18.3069
MOLF/EiJ both 57.6211 2.6066 62.7397 52.5025
NOD/ShiLtJ both 36.0028 2.9899 41.8742 30.1313
NON/ShiLtJ both 36.6367 2.6066 41.7553 31.518
NZB/BlNJ both 50.5775 2.6909 55.8618 45.2932
NZW/LacJ both 59.17 2.6909 64.4543 53.8857
PERA/EiJ both 47.3563 3.474 54.1783 40.5342
P/J both 54.345 2.537 59.3271 49.3629
PL/J both 40.9167 3.782 48.3436 33.4898
RBF/DnJ both 54.8972 2.9899 60.7687 49.0258
RF/J both 49.9433 2.9295 55.6962 44.1905
RIIIS/J both 41.2778 2.6743 46.5294 36.0262
SEA/GnJ both 56.2035 2.7566 61.6167 50.7902
SJL/J both 22.0167 2.6743 27.2683 16.7651
SM/J both 35.6729 3.0638 41.6894 29.6565
SPRET/EiJ both 7.8285 3.4352 14.5743 1.0827
SWR/J both 29.4413 2.6909 34.7256 24.1569
WSB/EiJ both 69.4341 2.8589 75.0483 63.8199




  GWAS USING LINEAR MIXED MODELS