1-Mb Resolution Array-Based Comparative Genomic Hybridization Using a BAC Clone Set Optimized for Cancer Gene Analysis

Table 5.

Clone Composition of Initial and Optimized Sets
Initial set
Optimized set
Chr
 Clones (N)
 Mean gap size (kb)
 Gap size std. dev. (kb)
 Direct coverage (kb)
 Percent direct coverage
 Clones (N)
 Mean gap size (kb)
 Gap size std. dev. (kb)
 Direct coverage (kb)
 Percent direct coverage
   1 246 930 1704 41350 16.8 372 831 1515 45827 18.6
   2 292 1570 1673 29199 12 370 941 486 43101 17.8
   3 209 857 1076 36124 18.1 242 743 727 40739 20.5
   4 170 1741 1759 19673 10.2 266 935 489 32996 17.1
   5 167 1587 1569 23640 12.9 240 947 553 34313 18.6
   6 177 1485 1639 20316 11.9 224 962 530 28951 17
   7 219 761 799 34103 21.6 237 678 553 37482 23.8
   8 151 1572 1785 21143 14.4 188 999 687 28998 19.7
   9 116 1521 3035 15295 11.6 159 1030 1789 21224 16
10 140 1300 1227 17639 13.1 189 910 553 23656 17.6
11 141 1377 1631 18984 13.8 194 848 578 25598 19.4
12 172 1297 1398 21449 16 216 897 682 27561 20.5
13 99 1931 2641 11079 9.8 136 1159 1508 16126 14.2
14 128 1521 2011 13092 12.6 151 1120 1524 16926 16.2
15 160 1272 2074 15241 15.3 151 1049 1581 17335 17.5
16 102 1158 2530 22165 24.1 129 850 1823 25403 27.7
17 84 945 1303 18936 22.2 109 743 727 21885 25.7
18 112 1229 1331 11177 14.4 127 845 576 15002 19.3
19 57 1569 1673 11076 18.5 84 748 712 12169 20.2
20 60 1240 1440 8293 13.1 82 723 629 11149 17.7
21 31 1613 2616 4408 9.9 45 1137 1825 6057 13.5
22 34 1216 2702 6390 13.4 49 1069 2501 7141 15
X 99 1669 1540 16078 10.6 147 1017 610 24108 15.9
Y 16 5675 9690 1618 2.8 27 2626 6457 3217 5.5
Uncertain 1093 0
Total
4275
4134

  • The number of clones and gap std. dev. are not perfectly related due to varying sizes of heterochromatic regions.

This Article

  1. Published in Advance December 12, 2003, doi: 10.1101/gr.1847304 Genome Res. 14: 179-187

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