Skip to main content

Table 3 Detailed information on the 69 SNPs with q-PCR result on SK-BR-3.

From: CARAT: A novel method for allelic detection of DNA copy number changes using high density oligonucleotide arrays

ID Chr Pos 2ΔCt + 1 CNAG ID Chr Pos 2ΔCt + 1 CNAG
1715815 1 18690258 3.488 1 1730991 8 12219548 26.909 1
1677772 1 18961201 5.667 1 1736241 8 12247290 25.15 1
1701237 1 18961224 7.26 1 1733286 8 12247313 16.336 1
1754488 1 19467510 3.824 0 1705485 8 12284860 14.52 1
1682316 2 10879223 2.144 1 1642293 8 12466876 15.428 1
1721952 2 11234432 2.54 0 1642509 8 12706003 1.588 1
1685376 3 2910083 2.056 1 1710395 8 12781129 12.376 1
1739241 3 54136934 1.599 1 1756158 8 12793955 14.566 1
1740943 3 17277166 1.464 1 1655411 8 13167929 0.05 1
1724728 4 9565339 1.155 1 1745005 8 13167938 1.079 1
1684152 4 9939264 0.878 1 1688950 8 13935299 1.092 0
1691466 4 18055558 0.961 1 1707862 9 28313673 1.735 1
1750183 4 36828550 1.055 1 1753803 10 93029981 1.253 1
1741115 4 10257358 4.408 0 1662598 10 95045955 0.953 0
1752629 4 10359355 3.122 1 1703209 12 38583007 3.249 0
1688092 4 15453342 2.467 1 1736669 12 41456018 2.01 0
1678384 4 17883743 5.948 1 1704347 13 10715383 3.358 1
1744079 5 15244637 5.483 1 1745652 15 78297093 2.27 1
1720887 7 11014665 3.084 1 1671362 17 10226391 1.27 0
1702115 7 12400720 5.116 1 1682916 17 37814459 29.293 1
1718607 7 12669364 4.571 1 1693987 17 39301708 14.672 1
1757769 8 17939677 1.542 1 1754640 17 40022109 4.865 1
1665304 8 71285928 19.126 1 1757956 17 42235557 1.037 0
1688836 8 75872813 3.289 1 1718017 17 48767363 1.091 1
1751239 8 78708089 4.098 1 1644936 18 5903606 2.003 1
1663022 8 79625135 9.142 0 1731333 18 47360984 0.7 1
1685422 8 87105878 6.207 1 1707435 18 48017003 0.433 1
1684480 8 87106029 6.229 1 1664936 18 48130851 0.476 1
1726250 8 89504951 10.056 1 1666836 18 48130957 0.498 1
1644190 8 90597245 5.169 1 1727821 18 48131045 0.622 1
1666582 8 10542849 0.572 1 1670177 19 20287003 0.227 1
1649454 8 10566581 0.428 0 1679882 19 20533429 0.086 1
1700191 8 11201815 32.706 1 1653046 19 23871401 0.025 0
1746553 8 12034217 13.881 0 1739377 20 10000010 7.198 0
1691086 8 12055400 10.465 1      
  1. Note:
  2. 12ΔCt + 1: theoretical estimate of total copy number using QPCR
  3. 2CNAG: "1" means included in the CNAG analysis (total 55); "0" means excluded from CNAG analysis (total 14) because the SNP resides on a restriction fragment of less than 500 bp.