Correct Estimation of Preferential Chromosome Pairing in Autotetraploids

Table 2.

Estimated Preferential Pairing Factor With Two Simulated Markers in Repulsion When the True Preferential Pairing Factor is 0 or 0.20.
pc= 0
p = 0.2
d(M)a
 nb
 p_estd
 SEe
 No. overf
 No. underg
 p_est
 SE
 No. over
 No. under
0.45 50 0.182 0.008 83 524 0.282 0.009 161 356
100 0.144 0.006 33 460 0.257 0.007 94 247
250 0.094 0.004 0 478 0.232 0.006 23 172
500 0.064 0.003 0 485 0.215 0.005 4 92
1000 0.048 0.002 0 488 0.211 0.003 0 22
5000 0.021 0.0009 0 482 0.203 0.002 0 0
10000 0.013 0.0006 0 491 0.200 0.001 0 0
0.25 50 0.107 0.005 7 50 0.240 0.006 32 191
100 0.081 0.004 0 455 0.217 0.005 9 94
250 0.049 0.002 0 497 0.207 0.003 0 40
500 0.034 0.002 0 482 0.203 0.002 0 5
1000 0.025 0.001 0 476 0.204 0.002 0 0
0.05 50 0.060 0.003 0 489 0.211 0.004 0 75
100 0.046 0.002 0 527 0.202 0.003 0 31
250 0.027 0.001 0 495 0.199 0.002 0 0
500 0.019 0.0009 0 547 0.200 0.001 0 0
1000
0.013
0.0006
0
515
0.201
0.001
0
0

  • ↵a The genetic distance between the two markers with unit Morgan (M).

  • ↵b The sample size.

  • ↵c The true value of the preferential pairing factor used in simulation.

  • ↵d The average of 1000 estimated preferential pairing factors from 1000 simulated data sets.

  • ↵e The standard error of the 1000 estimated preferential pairing factors.

  • ↵f The number of estimated preferential pairing factors larger than two-thirds.

  • ↵g The number of negative estimated preferential pairing factors.

This Article

  1. Published in Advance February 12, 2004, doi: 10.1101/gr.1596604 Genome Res. 14: 459-462

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