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Table 2 Results of quantitative real-time PCR analysis of the 12 confirmed CNVRs

From: A genome-wide detection of copy number variations using SNP genotyping arrays in swine

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