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Table 1 Characterization of the association CNVs

From: Genome-wide CNV analysis reveals variants associated with growth traits in Bos indicus

CNV Supported by P value after FDR correction Overlap with
PennCNV HapMap WG PW PY CW CY MW MY Gene symbol QTL ID QTL phenotype
CNV17 Yes Yes 0.6589 0.0068 0.0036 0.8175 0.5368 0.0010 0.0035 SETD4, CBR1   
CNV79 Yes No 0.2911 0.1268 0.0450 0.1043 0.0580 0.0826 0.1497 DYNC1LI1   
CNV93 Yes Yes 0.0438 0.0002 0.0017 0.0752 0.0484 0.0054 0.0063   22866 Intramuscular fat
CNV95 Yes Yes 0.0157 0.8172 0.8042 0.0002 0.0000 0.8961 0.8287 PRAME   
CNV96 Yes Yes 0.2910 0.9430 0.8805 0.0382 0.0643 0.9529 1.0000 ZNF280B, HSFY2 19024 Clinical mastitis
CNV97 Yes Yes 0.0376 0.0015 0.0027 0.0453 0.0191 0.0089 0.0081   19024 Clinical mastitis
CNV98 Yes Yes 0.0439 0.0011 0.0052 0.0789 0.0637 0.0057 0.0155 EPHB3   
CNV99 Yes No 0.0927 0.3515 0.3329 0.1864 0.0491 0.3428 0.1107 FANCC, TSPY   
CNV100 No No 0.0093 0.0000 0.0000 0.0109 0.0001 0.0000 0.0000 KCNJ12 22873 Intramuscular fat
CNV107 Yes No 0.6665 0.0074 0.0033 0.9921 0.9579 0.0064 0.0315   20642 Iron content
CNV121 Yes No 0.0918 0.2194 0.5162 0.0784 0.3762 0.0379 0.4378 COL26A1 15219 Calf size
CNV137 Yes Yes 0.3419 0.0276 0.0126 0.8045 0.5354 0.0211 0.0434    
CNV146 Yes Yes 0.0132 0.9858 0.8931 0.0663 0.0546 0.9304 0.8783    
CNV167 No No 0.0390 0.7426 0.8412 0.0674 0.1045 0.8952 0.9391   22873 Intramuscular fat
CNV175 Yes Yes 0.2494 0.1736 0.0704 0.5176 0.0921 0.0772 0.0160    
CNV195 Yes Yes 0.1181 0.1798 0.2897 0.1032 0.2477 0.0371 0.1585   15419 Gestation length
CNV204 Yes Yes 0.0892 0.9530 1.0000 0.0270 0.0712 0.9434 1.0000 GBP6, GBP4   
  1. Note: PennCNV: We applied PennCNV analysis using the same samples. HapMap: The previous study using the Bovine HD microarray data from 27 cattle breeds [18]