Table 2

Results of quantitative real-time PCR analysis of the 12 confirmed CNVRs
CNVR_No. Chr. Starta Enda Primer_ID Positive samples Negative samples validated Genes
Frequency Type Number of samples Confirmed samples Confirmed rate Number of sample Confirmed samples Confirmed rate
6 1 91513835 91584145 17-2 0.0148 gain 7 7 1.0000 5 0 0.0000 Yes --
17-8 7 0 -- 5 0 -- No --
11 1 160653704 160713406 4-1 0.0675 loss 32 32 1.0000 15 1 0.0667 Yes --
4-4 32 32 1.0000 15 1 0.0667 Yes --
20 1 274307988 274570232 5-3 0.0274 loss 13 0 -- 11 0 -- No C5
5-7 13 12 0.9200 11 2 0.18 Yes TRAF1
22 1 276291234 276800847 3-1 0.0738 both 35 31 0.8857 11 1 0.0909 Yes ORs
3-5 35 35 1.0000 15 6 0.4000 Yes
161 14 52620825 52720705 6-3 0.0211 loss 10 10 1.0000 11 8 0.7273 Yes --
6-6 10 10 1.0000 11 8 0.7273 Yes --
259 2 4834400 5424602 7-3 0.0759 both 18 16 0.8889 12 6 0.5000 Yes EFEMP2
7-5 36 31 0.8611 12 6 0.5000 Yes DPF2
276 2 137644872 137915976 15-4 0.0928 gain 8 0 -- 4 0 -- No ORs
15-5 38 26 0.6842 19 9 0.4737 Yes
15-6 8 7 0.8750 4 1 0.2500 yes
285 3 87641425 87711895 16-2 0.0422 gain 20 18 0.9000 12 8 0.6666 Yes --
16-5 20 19 0.9500 18 10 0.5556 Yes --
314 5 59744851 60461526 13-1 0.0084 loss 4 3 0.7500 12 0 0.0000 Yes CD4
13-5 4 3 0.7500 8 0 0.0000 Yes GAPDH
325 6 37641317 38387857 8-2 0.0211 loss 10 10 1.0000 8 2 0.2500 Yes FTL
8-5 10 10 1.0000 8 2 0.2500 Yes IRF3
344 7 29445530 29634684 9-4 0.0105 loss 5 0 -- 7 0 -- No -
9-6 5 5 1.0000 16 10 0.6250 Yes -
373 9 4203824 4364337 2-2 0.0928 loss 28 28 1.0000 17 4 0.2353 Yes ORs
2-7 29 29 1.0000 17 2 0.1176 Yes
Mean 0.9269 0.3182

a The Sus scrofa assembly (9.0) (http://www.ensembl.org/Sus_scrofa/Info/Index webcite) was used to indicate the position of the CNVRs.

Wang et al.

Wang et al. BMC Genomics 2012 13:273   doi:10.1186/1471-2164-13-273

Open Data