Table 2

Haplotype frequencies (fh) as derived for DEFB104 MSV rs17843871, rs2680507, rs17843872 and rs4259430 by pooled PCR/cloning and Sanger sequencing
Haplotype Frequency as determined by pooled PCR/sequencing Group comparison
PDAC CARLA1 CP CARLA2 Human genomic pool PDAC vs CARLA1 CP vs CARLA2
No. clones fh No. clones fh No. clones fh No. clones fh No.clones fh P* P*
GAGC 224 0.40 286 0.34 310 0.41 391 0.34 413 0.38 0.160 0.061
GGGC 152 0.27 207 0.25 200 0.27 277 0.24 233 0.21 0.540 0.444
GAAT 39 0.07 92 0.11 92 0.12 153 0.13 106 0.10 0.109 0.747
CAGT 60 0.11 65 0.08 63 0.08 91 0.08 62 0.06 0.232 0.813
CAAT 29 0.05 48 0.06 27 0.04 76 0.07 47 0.04 0.773 0.123
CAGC 15 0.03 36 0.04 23 0.03 56 0.05 59 0.05 0.316 0.298
GAGT 22 0.04 28 0.03 9 0.01 41 0.04 54 0.05 0.721 0.079
GAAC 5 0.01 22 0.03 7 0.01 28 0.02 12 0.01 0.136 0.194
GGAT 3 0.01 22 0.03 2 <0.01 14 0.01 27 0.02 0.059 0.217
GGGT 7 0.01 10 0.01 2 <0.01 9 0.01 25 0.02 0.961 0.430
CGGC 6 0.01 5 0.01 2 <0.01 12 0.01 22 0.02 0.547 0.297
CGGT 0 0.00 5 0.01 1 <0.01 3 <0.01 0 0.00 0.163 0.720
GGAC 0 0.00 4 <0.01 0 0.00 0 0.00 6 0.01 0.222 n.a.
CAAC 1 <0.01 2 <0.01 0 0.00 2 <0.01 0 0.00 0.781 0.318
CGAT 1 <0.01 2 <0.01 0 0.00 0 0.00 4 <0.01 0.783 n.a
Total 564 834 738 1.153 1.070 0.239 0.129

* P values for the comparison of case and control haplotype frequencies were based upon simulations as previously described [33].

Taudien et al.

Taudien et al. BMC Research Notes 2012 5:629   doi:10.1186/1756-0500-5-629

Open Data