Phenotype measure:   Donahue1   body_BMD

ID, description, units MPD:11506   body_BMD   whole body bone mineral density (BMD)   [g/cm2]
Data set, strains Donahue1   inbred w/CC7   30 strains     sex: both     age: 15-16wks
Procedure DXA
Ontology mappings

  STRAIN COMPARISON PLOT
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Donahue1 - whole body bone mineral density (BMD)



  MEASURE SUMMARY
Measure Summary FemaleMale
Number of strains tested30 strains30 strains
Mean of the strain means0.0454   g/cm2 0.0460   g/cm2
Median of the strain means0.0455   g/cm2 0.0466   g/cm2
SD of the strain means± 0.00436 ± 0.00437
Coefficient of variation (CV)0.0960 0.0949
Min–max range of strain means0.0379   –   0.0536   g/cm2 0.0389   –   0.0524   g/cm2
Mean sample size per strain10.2   mice 9.9   mice


  ANOVA, Q-Q NORMALITY ASSESSMENT
ANOVA summary      
FactorDFSum of squaresMean sum of squaresF valuep value (Pr>F)
sex 1 0.0001 0.0001 25.2833 < 0.0001
strain 29 0.0105 0.0004 124.1893 < 0.0001
sex:strain 29 0.0006 0.0 7.1355 < 0.0001
Residuals 547 0.0016 0.0


Q-Q normality assessment based on residuals

  


  STRAIN MEANS (UNADJUSTED)
Strain Sex Mean SD N mice SEM CV Min, Max Z score
129S1/SvImJ f 0.0493 0.0018   10 0.00057 0.0366 0.0452, 0.0516 0.88
129S1/SvImJ m 0.0524 0.00221   10 0.000698 0.0421 0.0495, 0.0564 1.47
129X1/SvJ f 0.0518 0.00149   10 0.000471 0.0287 0.0491, 0.0538 1.46
129X1/SvJ m 0.0509 0.00103   10 0.000326 0.0202 0.0494, 0.0525 1.12
A/J f 0.0413 0.0013   10 0.00041 0.0314 0.0396, 0.0436 -0.95
A/J m 0.0413 0.000825   10 0.000261 0.02 0.0401, 0.0426 -1.07
AKR/J f 0.0525 0.00196   10 0.00062 0.0373 0.0495, 0.0564 1.62
AKR/J m 0.0523 0.00197   10 0.000623 0.0376 0.049, 0.0553 1.44
BALB/cJ f 0.0459 0.00206   10 0.000652 0.0449 0.0419, 0.0483 0.1
BALB/cJ m 0.0479 0.00103   10 0.000327 0.0216 0.0465, 0.0497 0.44
BTBR T+ Itpr3tf/J f 0.0536 0.00231   9 0.00077 0.0431 0.0495, 0.0577 1.87
BTBR T+ Itpr3tf/J m 0.0514 0.00137   10 0.000432 0.0266 0.0485, 0.0535 1.24
BUB/BnJ f 0.0482 0.000914   10 0.000289 0.019 0.0468, 0.0494 0.63
BUB/BnJ m 0.0492 0.00145   10 0.000458 0.0294 0.0465, 0.0516 0.73
C3H/HeJ f 0.0502 0.0015   10 0.000474 0.0298 0.0477, 0.0526 1.09
C3H/HeJ m 0.0516 0.00155   10 0.000491 0.03 0.0492, 0.0538 1.28
C57BL/6J f 0.0437 0.00148   10 0.000468 0.0339 0.0415, 0.0459 -0.4
C57BL/6J m 0.0471 0.00104   10 0.000329 0.0221 0.0459, 0.0485 0.25
C57L/J f 0.0496 0.00162   10 0.000511 0.0326 0.0459, 0.051 0.95
C57L/J m 0.0477 0.00156   10 0.000494 0.0328 0.0453, 0.0497 0.39
C58/J f 0.0451 0.0011   10 0.000349 0.0245 0.0436, 0.0465 -0.08
C58/J m 0.046 0.00143   9 0.000475 0.031 0.0445, 0.0485 0.0
CAST/EiJ f 0.0404 0.00107   10 0.000337 0.0264 0.0393, 0.042 -1.16
CAST/EiJ m 0.0393 0.0012   10 0.000381 0.0307 0.0374, 0.0408 -1.53
CZECHII/EiJ f 0.0391 0.00222   12 0.000641 0.0568 0.0358, 0.0422 -1.45
CZECHII/EiJ m 0.0396 0.00175   12 0.000506 0.0443 0.0372, 0.0425 -1.46
DBA/2J f 0.0437 0.000931   10 0.000294 0.0213 0.0423, 0.0453 -0.4
DBA/2J m 0.045 0.00157   10 0.000495 0.0348 0.0425, 0.0472 -0.23
FVB/NJ f 0.0474 0.00118   10 0.000374 0.0249 0.046, 0.049 0.45
FVB/NJ m 0.048 0.00181   10 0.000572 0.0377 0.0449, 0.0516 0.46
JF1/MsJ f 0.0432 0.00256   11 0.000773 0.0593 0.041, 0.0486 -0.51
JF1/MsJ m 0.0412 0.000858   10 0.000271 0.0208 0.0399, 0.0424 -1.1
MOLF/EiJ f 0.0396 0.00149   10 0.00047 0.0375 0.0374, 0.0419 -1.34
MOLF/EiJ m 0.0389 0.00131   8 0.000462 0.0336 0.0372, 0.0406 -1.62
MSM/MsJ f 0.0401 0.00281   11 0.000848 0.0702 0.0357, 0.0468 -1.22
MSM/MsJ m 0.0408 0.00216   9 0.000721 0.053 0.0374, 0.0448 -1.19
NOD/ShiLtJ f 0.047 0.00128   10 0.000404 0.0272 0.044, 0.0487 0.36
NOD/ShiLtJ m 0.0486 0.00213   10 0.000673 0.0438 0.0436, 0.0517 0.6
NZB/BlNJ f 0.049 0.00184   10 0.000582 0.0376 0.0463, 0.0522 0.81
NZB/BlNJ m 0.0472 0.000965   10 0.000305 0.0204 0.0453, 0.0487 0.28
NZW/LacJ f 0.0498 0.0021   10 0.000666 0.0422 0.0465, 0.0529 1.0
NZW/LacJ m 0.0515 0.00198   10 0.000625 0.0384 0.0492, 0.0556 1.26
PERA/EiJ f 0.0436 0.00232   10 0.000734 0.0533 0.0406, 0.0472 -0.42
PERA/EiJ m 0.0483 0.00186   10 0.000587 0.0384 0.0451, 0.0513 0.53
PL/J f 0.0442 0.00176   10 0.000558 0.0399 0.0416, 0.0474 -0.28
PL/J m 0.0445 0.00138   11 0.000417 0.0311 0.0428, 0.0478 -0.34
PWK/PhJ f 0.0429 0.00252   13 0.000699 0.0587 0.0402, 0.0475 -0.58
PWK/PhJ m 0.0412 0.0016   9 0.000533 0.0388 0.039, 0.0437 -1.1
SEA/GnJ f 0.0463 0.00234   14 0.000625 0.0505 0.0429, 0.0506 0.2
SEA/GnJ m 0.0458 0.00213   10 0.000673 0.0464 0.042, 0.0485 -0.04
SJL/J f 0.0491 0.00179   10 0.000567 0.0365 0.0453, 0.0511 0.84
SJL/J m 0.0511 0.00181   10 0.000574 0.0355 0.0495, 0.0558 1.17
SM/J f 0.0379 0.00172   10 0.000544 0.0454 0.034, 0.0401 -1.73
SM/J m 0.0436 0.00207   10 0.000655 0.0475 0.0415, 0.0486 -0.55
SPRET/EiJ f 0.0468 0.00185   9 0.000615 0.0395 0.0443, 0.0506 0.31
SPRET/EiJ m 0.0434 0.00112   10 0.000355 0.0259 0.0414, 0.0448 -0.59
SWR/J f 0.0437 0.000663   10 0.00021 0.0152 0.0426, 0.0448 -0.4
SWR/J m 0.0449 0.000927   10 0.000293 0.0206 0.0437, 0.0465 -0.25
WSB/EiJ f 0.0383 0.00145   10 0.000459 0.0379 0.036, 0.04 -1.64
WSB/EiJ m 0.0391 0.00146   10 0.000463 0.0375 0.0373, 0.0421 -1.58


  LEAST SQUARES MEANS (MODEL-ADJUSTED)
Strain Sex Mean SEM UpperCL LowerCL
129S1/SvImJ f 0.0493 0.0005 0.0504 0.0482
129S1/SvImJ m 0.0524 0.0005 0.0534 0.0513
129X1/SvJ f 0.0518 0.0005 0.0529 0.0508
129X1/SvJ m 0.0509 0.0005 0.052 0.0499
A/J f 0.0413 0.0005 0.0423 0.0402
A/J m 0.0413 0.0005 0.0424 0.0403
AKR/J f 0.0525 0.0005 0.0536 0.0515
AKR/J m 0.0523 0.0005 0.0534 0.0513
BALB/cJ f 0.0459 0.0005 0.047 0.0449
BALB/cJ m 0.0479 0.0005 0.0489 0.0468
BTBR T+ Itpr3tf/J f 0.0536 0.0006 0.0547 0.0525
BTBR T+ Itpr3tf/J m 0.0514 0.0005 0.0524 0.0503
BUB/BnJ f 0.0481 0.0005 0.0492 0.0471
BUB/BnJ m 0.0492 0.0005 0.0503 0.0481
C3H/HeJ f 0.0503 0.0005 0.0513 0.0492
C3H/HeJ m 0.0516 0.0005 0.0527 0.0506
C57BL/6J f 0.0437 0.0005 0.0447 0.0426
C57BL/6J m 0.0471 0.0005 0.0481 0.046
C57L/J f 0.0496 0.0005 0.0506 0.0485
C57L/J m 0.0477 0.0005 0.0488 0.0467
C58/J f 0.0451 0.0005 0.0462 0.0441
C58/J m 0.046 0.0006 0.0472 0.0449
CAST/EiJ f 0.0404 0.0005 0.0414 0.0393
CAST/EiJ m 0.0393 0.0005 0.0403 0.0382
CZECHII/EiJ f 0.0391 0.0005 0.04 0.0381
CZECHII/EiJ m 0.0396 0.0005 0.0405 0.0386
DBA/2J f 0.0437 0.0005 0.0447 0.0426
DBA/2J m 0.045 0.0005 0.046 0.0439
FVB/NJ f 0.0474 0.0005 0.0485 0.0464
FVB/NJ m 0.048 0.0005 0.049 0.0469
JF1/MsJ f 0.0432 0.0005 0.0442 0.0422
JF1/MsJ m 0.0412 0.0005 0.0423 0.0402
MOLF/EiJ f 0.0396 0.0005 0.0407 0.0386
MOLF/EiJ m 0.0389 0.0006 0.0401 0.0377
MSM/MsJ f 0.0401 0.0005 0.0411 0.0391
MSM/MsJ m 0.0408 0.0006 0.042 0.0397
NOD/ShiLtJ f 0.047 0.0005 0.0481 0.0459
NOD/ShiLtJ m 0.0486 0.0005 0.0496 0.0475
NZB/BlNJ f 0.049 0.0005 0.05 0.0479
NZB/BlNJ m 0.0472 0.0005 0.0483 0.0462
NZW/LacJ f 0.0499 0.0005 0.0509 0.0488
NZW/LacJ m 0.0515 0.0005 0.0525 0.0504
PERA/EiJ f 0.0436 0.0005 0.0446 0.0425
PERA/EiJ m 0.0483 0.0005 0.0494 0.0473
PL/J f 0.0442 0.0005 0.0453 0.0432
PL/J m 0.0445 0.0005 0.0455 0.0435
PWK/PhJ f 0.0429 0.0005 0.0439 0.042
PWK/PhJ m 0.0412 0.0006 0.0424 0.0401
SEA/GnJ f 0.0463 0.0005 0.0472 0.0454
SEA/GnJ m 0.0458 0.0005 0.0469 0.0448
SJL/J f 0.0491 0.0005 0.0502 0.0481
SJL/J m 0.0512 0.0005 0.0522 0.0501
SM/J f 0.0379 0.0005 0.039 0.0368
SM/J m 0.0436 0.0005 0.0446 0.0425
SPRET/EiJ f 0.0468 0.0006 0.0479 0.0456
SPRET/EiJ m 0.0434 0.0005 0.0445 0.0423
SWR/J f 0.0437 0.0005 0.0448 0.0427
SWR/J m 0.0449 0.0005 0.046 0.0439
WSB/EiJ f 0.0383 0.0005 0.0393 0.0372
WSB/EiJ m 0.0391 0.0005 0.0401 0.038


  LEAST SQUARES MEANS (MODEL-ADJUSTED), SEXES COMBINED
Strain Sex Mean SEM UpperCL LowerCL
129S1/SvImJ both 0.0508 0.0004 0.0516 0.0501
129X1/SvJ both 0.0514 0.0004 0.0521 0.0506
A/J both 0.0413 0.0004 0.042 0.0405
AKR/J both 0.0524 0.0004 0.0532 0.0517
BALB/cJ both 0.0469 0.0004 0.0477 0.0462
BTBR T+ Itpr3tf/J both 0.0525 0.0004 0.0532 0.0517
BUB/BnJ both 0.0487 0.0004 0.0494 0.0479
C3H/HeJ both 0.0509 0.0004 0.0517 0.0502
C57BL/6J both 0.0454 0.0004 0.0461 0.0446
C57L/J both 0.0486 0.0004 0.0494 0.0479
C58/J both 0.0456 0.0004 0.0464 0.0448
CAST/EiJ both 0.0398 0.0004 0.0406 0.0391
CZECHII/EiJ both 0.0393 0.0003 0.04 0.0386
DBA/2J both 0.0443 0.0004 0.0451 0.0436
FVB/NJ both 0.0477 0.0004 0.0484 0.0469
JF1/MsJ both 0.0422 0.0004 0.0429 0.0415
MOLF/EiJ both 0.0392 0.0004 0.04 0.0385
MSM/MsJ both 0.0404 0.0004 0.0412 0.0397
NOD/ShiLtJ both 0.0478 0.0004 0.0485 0.047
NZB/BlNJ both 0.0481 0.0004 0.0488 0.0473
NZW/LacJ both 0.0507 0.0004 0.0514 0.0499
PERA/EiJ both 0.046 0.0004 0.0467 0.0452
PL/J both 0.0443 0.0004 0.0451 0.0436
PWK/PhJ both 0.0421 0.0004 0.0428 0.0414
SEA/GnJ both 0.046 0.0004 0.0467 0.0454
SJL/J both 0.0501 0.0004 0.0509 0.0494
SM/J both 0.0407 0.0004 0.0415 0.04
SPRET/EiJ both 0.0451 0.0004 0.0459 0.0443
SWR/J both 0.0443 0.0004 0.0451 0.0436
WSB/EiJ both 0.0387 0.0004 0.0394 0.0379




  GWAS USING LINEAR MIXED MODELS