. _:b421655872 . _:b421656850 . . _:b421656022 . _:b421655875 . _:b421656692 . . . _:b421655874 . . _:b421655885 . . _:b421655316 . . . _:b421655470 . _:b421655884 . _:b421655887 . _:b421656530 . _:b421656091 . . _:b421655886 . . _:b421656174 . _:b421655881 . _:b421655728 . _:b421655880 . _:b421656755 . _:b421655883 . _:b6691638 . _:b421655882 . _:b421655893 . _:b421656649 . _:b421656145 . _:b421655892 . _:b421655895 . _:b421655894 . _:b421656684 . . _:b421655889 . . _:b421655888 . _:b421656605 . _:b421655891 . . _:b421655890 . . _:b421656756 . _:b421656828 . _:b421655901 . _:b421655342 . _:b421655900 . . _:b421656265 . _:b421656771 . _:b421655903 . . _:b421655452 . . _:b421655902 . _:b421656543 . _:b421656084 . . . _:b421655897 . . _:b421655896 . _:b421656049 . _:b421655899 . _:b421656077 . _:b421655898 . . _:b421655909 . _:b421655908 . . . _:b421655911 . . _:b421655910 . . _:b421656696 . _:b421655905 . . _:b421655904 . _:b421655907 . _:b421656199 . _:b421655906 . . _:b421655917 . . _:b421655916 . _:b421655919 . _:b421656350 . _:b421655880 . _:b421655918 . _:b421655913 . _:b421655912 . _:b421656286 . _:b421655445 . _:b421655915 . . _:b421655914 . . _:b421655566 . _:b421655925 . . _:b421656646 . . . _:b421655924 . _:b421655927 . _:b421655926 . . . _:b421655455 . _:b421655921 . _:b421656830 . _:b421655360 . . _:b421655920 . . _:b421656069 "2"^^ . _:b421655923 . _:b421656068 "2"^^ . . _:b421655922 . _:b421656071 "2"^^ . _:b421655933 . _:b421656070 "2"^^ . . _:b421655932 . _:b421656065 "2"^^ . . _:b421655935 . . _:b421656336 . _:b421656064 "2"^^ . _:b421655934 . _:b421656397 . _:b421656067 "2"^^ . . _:b421655929 . _:b421656326 . _:b421656066 "2"^^ . _:b421655928 . _:b6691643 "Nevertheless, as previously suggested for somatic point mutations>>13<<,14 it may be that multiple, infrequently rearranged cancer genes are operative in breast cancer as they are in leukaemia2." . . . _:b421656077 "2"^^ . _:b421655931 . _:b421656076 "2"^^ . . _:b421655930 . _:b421656079 "2"^^ . _:b421655715 . _:b421655941 . _:b421656078 "2"^^ . _:b421655940 . _:b421656073 "2"^^ . _:b421655438 . _:b421655943 . _:b421656072 "2"^^ . _:b421655942 . . . _:b421656075 "2"^^ . _:b421655937 . . _:b421656463 . _:b421656074 "2"^^ . _:b421655936 . . _:b421656085 "2"^^ . _:b421655939 . _:b421656084 "2"^^ . . _:b421655938 . _:b421656087 "2"^^ . _:b421656494 . _:b421655949 . . _:b421656086 "2"^^ . _:b421656698 . _:b421655948 . _:b421656081 "2"^^ . . _:b421655951 . _:b421656080 "2"^^ . . _:b421655957 . _:b421655950 . _:b421656083 "2"^^ . _:b421655436 . _:b421655945 . _:b421656082 "2"^^ . . _:b421655944 . . _:b421656093 "2"^^ . _:b421655947 . _:b421656092 "2"^^ . _:b421656776 . _:b421655946 . _:b421656095 "2"^^ . _:b421655957 . . _:b421656094 "2"^^ . . . . _:b421655956 . . _:b421656089 "2"^^ . _:b421655959 . _:b421656088 "2"^^ . . . _:b421655958 . _:b421655894 . _:b421656091 "2"^^ . _:b421655330 . _:b421655953 . _:b421656090 "2"^^ . . _:b421655952 . _:b421655503 . _:b421656075 . _:b421656101 "2"^^ . _:b421656455 . _:b421655955 . _:b421656100 "2"^^ . _:b421655321 . _:b421655954 . . _:b421656103 "2"^^ . . _:b421655552 . . _:b421655965 . _:b421656009 . _:b421656102 "2"^^ . _:b421655964 . _:b421656097 "2"^^ . _:b421655732 . _:b421655334 . _:b421655967 . . _:b421656096 "2"^^ . _:b421655966 . . _:b421656099 "2"^^ . _:b421655961 . . _:b421656098 "2"^^ . _:b421655960 . _:b421656109 "2"^^ . _:b421655963 . _:b421656108 "2"^^ . . _:b421655962 . _:b421656111 "2"^^ . _:b421655973 . _:b421656110 "2"^^ . _:b421655616 . _:b421655972 . _:b421656105 "2"^^ . _:b421656131 . . _:b421655975 . . _:b421656104 "2"^^ . _:b421655694 . . _:b421655793 . _:b421655974 . _:b421656107 "2"^^ . . _:b421655969 . _:b421656106 "2"^^ . _:b421655968 . _:b421656117 "2"^^ . _:b421655950 . . _:b421655971 . _:b421656116 "2"^^ . _:b421655870 . _:b421656125 . . _:b421655970 . _:b421656119 "2"^^ . _:b421655981 . _:b421656118 "2"^^ . . _:b421655980 . _:b421656113 "2"^^ . _:b421655983 . . . _:b421655918 . _:b421656112 "2"^^ . . _:b421655982 . _:b421656115 "2"^^ . _:b421655713 . _:b421655977 . _:b421656667 . _:b421656363 . _:b421656114 "2"^^ . _:b421655976 . . _:b421656125 "2"^^ . _:b421655979 . _:b421656124 "2"^^ . . _:b421655978 . _:b421656302 . _:b421656127 "2"^^ . _:b421655989 . _:b421656126 "2"^^ . _:b421655789 . _:b421655988 . _:b421656121 "2"^^ . _:b421655991 . . _:b421656120 "2"^^ . _:b421655990 . _:b421655480 . _:b421656123 "2"^^ . _:b421655985 . _:b421656122 "2"^^ . _:b421656819 . . _:b421655984 . _:b421656133 "2"^^ . _:b421655987 . _:b421656132 "2"^^ . . _:b421655986 . . _:b421656255 . _:b421656135 "2"^^ . . _:b421655997 . _:b421656134 "2"^^ . _:b421655996 . _:b421656129 "2"^^ . _:b421655829 . _:b421655999 . _:b421656128 "2"^^ . _:b421655998 . _:b421656131 "2"^^ . _:b421655805 . _:b421655993 . . _:b421656702 . _:b421656130 "2"^^ . . _:b421655992 . . _:b421656141 "2"^^ . _:b421656709 . _:b421656116 . _:b421655995 . _:b421656417 . _:b421656140 "2"^^ . _:b421655994 . _:b421655853 . _:b421656143 "2"^^ . _:b421656005 . _:b421656584 . _:b421656142 "2"^^ . _:b421656613 . _:b421656428 . _:b421656004 . _:b6691603 "Most of the currently known fusion genes are operative in leukaemias, lymphomas and sarcomas>>1<<,3 although similar cancer-causing rearrangements in RET, NTRK1, NTRK3, BRAF and TFE3 were reported in rare epithelial cancers many years ago (http:" . . _:b421656443 . _:b421656137 "2"^^ . _:b421656007 . _:b421656136 "2"^^ . _:b421656006 . _:b421656139 "2"^^ . _:b421656001 . _:b421656138 "2"^^ . _:b421656000 . . _:b421656149 "2"^^ . _:b421656003 . . _:b421656477 . _:b421656148 "2"^^ . _:b421656002 . _:b421656151 "2"^^ . . _:b421656472 . _:b421656013 . _:b421656285 . _:b421656150 "2"^^ . . _:b421656039 . _:b421656012 . _:b421656145 "2"^^ . . _:b421656015 . _:b421656144 "2"^^ . _:b421655857 . _:b421656014 . _:b421656147 "2"^^ . _:b421656009 . _:b421656146 "2"^^ . _:b421655774 . _:b421656209 . _:b421656161 . _:b421656008 . _:b421656157 "2"^^ . _:b421656011 . _:b421656156 "2"^^ . _:b421656010 . _:b421656159 "2"^^ . _:b421656021 . . . _:b421656158 "2"^^ . _:b421656020 . _:b421656153 "2"^^ . _:b421656023 . . _:b421656800 . _:b421656152 "2"^^ . _:b421656022 . _:b421656155 "2"^^ . _:b421656017 . _:b421656154 "2"^^ . _:b421656016 . _:b421656165 "2"^^ . _:b421656019 . _:b421655548 . _:b421655973 . _:b421656164 "2"^^ . _:b421656177 . _:b421656018 . _:b421656167 "2"^^ . _:b421656029 . _:b421656166 "2"^^ . _:b421656028 . _:b421656311 . _:b421656161 "2"^^ . . _:b421656031 . _:b421656160 "2"^^ . . _:b421656030 . _:b421656163 "2"^^ . _:b421655657 . _:b421655971 . _:b421656025 . _:b421656162 "2"^^ . _:b421656024 . _:b421656173 "2"^^ . _:b421656027 . _:b421656172 "2"^^ . _:b421656026 . _:b421655323 . _:b421656175 "2"^^ . _:b421656465 . . . _:b421656839 . _:b421656037 . . . . _:b421656174 "2"^^ . _:b421656036 . . _:b421656169 "2"^^ . _:b421656039 . _:b421656809 . _:b421656168 "2"^^ . . _:b421656038 . _:b421656171 "2"^^ . _:b421656033 . _:b421656170 "2"^^ . _:b421656032 . _:b421656181 "2"^^ . _:b421656035 . . . _:b421656180 "2"^^ . _:b421656034 . . _:b421656183 "2"^^ . _:b421656045 . _:b421656182 "2"^^ . _:b421656044 . . _:b421656177 "2"^^ . _:b421656047 . _:b421656176 "2"^^ . . _:b421656046 . _:b421656179 "2"^^ . . _:b421656041 . _:b421656178 "2"^^ . _:b421655791 . . _:b421656040 . _:b421656189 "2"^^ . _:b421656410 . _:b421656043 . . _:b421656648 . _:b421656188 "2"^^ . . _:b421656042 . _:b421656191 "2"^^ . . _:b421656053 . _:b421655499 . _:b421656190 "2"^^ . _:b421656052 . _:b421655424 . . _:b421656185 "2"^^ . . _:b421656055 . _:b421656184 "2"^^ . _:b421656054 . _:b421656187 "2"^^ . _:b421655593 . _:b421656049 . _:b421656186 "2"^^ . _:b421655463 . _:b421656048 . _:b421655976 . . _:b421656197 "2"^^ . _:b421656051 . . _:b421656196 "2"^^ . . _:b421656050 . _:b421655529 . _:b421656199 "2"^^ . _:b421656061 . _:b421656198 "2"^^ . _:b421656060 . _:b421655374 . . _:b421656193 "2"^^ . _:b421656775 . . . _:b421656063 . _:b421656192 "2"^^ . _:b421656062 . _:b421656195 "2"^^ . _:b421656057 . _:b421656194 "2"^^ . _:b421656056 . _:b421656205 "2"^^ . _:b421655811 . _:b421656059 . _:b421656204 "2"^^ . . _:b421656058 . _:b421656207 "2"^^ . _:b421655557 . _:b421656823 . _:b421656206 "2"^^ . _:b421655556 . _:b421656201 "2"^^ . _:b421655559 . _:b6691605 "Activated fusion genes in common adult epithelial cancers such as those of the ETS transcription factor family in prostate cancer>>7<< and the ALK gene in lung adenocarcinoma8 were discovered only recently and not through the conventional strategy of positional cloning of cytogenetically ascertained chromosomal breakpoints." . _:b421656200 "2"^^ . _:b421655558 . _:b421656203 "2"^^ . _:b421656452 . _:b421655553 . _:b421656202 "2"^^ . _:b421655422 . _:b421655552 . _:b421656213 "2"^^ . _:b421655555 . . _:b421656212 "2"^^ . _:b421655554 . . _:b421656215 "2"^^ . . . _:b421655565 . . _:b421656214 "2"^^ . . _:b421655564 . "10.1038%2Fnature08645" . _:b421656209 "2"^^ . _:b421655567 . _:b421656208 "2"^^ . _:b421655566 . _:b421655787 . _:b421656211 "2"^^ . _:b421655561 . . . _:b421656210 "2"^^ . _:b421656725 . _:b421655560 . _:b421656221 "2"^^ . _:b421655563 . _:b421656220 "2"^^ . _:b421655562 . _:b6691629 . . _:b421656223 "2"^^ . . . . _:b421655573 . _:b421656222 "2"^^ . _:b421655379 . _:b421655572 . _:b421656217 "2"^^ . _:b421655575 . . _:b421656216 "2"^^ . _:b421656323 . _:b421655574 . _:b421655668 . _:b421656219 "2"^^ . _:b421655940 . _:b421655569 . . _:b421656218 "2"^^ . _:b421655568 . _:b421656229 "2"^^ . _:b421655702 . _:b421655409 . _:b421655850 . _:b421655571 . . _:b421656228 "2"^^ . . _:b421655570 . _:b421656231 "2"^^ . _:b421655418 . . _:b421655581 . _:b421656230 "2"^^ . _:b421655580 . _:b421656225 "2"^^ . _:b421655583 . . _:b421656180 . _:b421656224 "2"^^ . _:b421655582 . _:b421655595 . _:b421656227 "2"^^ . _:b421655967 . . _:b421655577 . _:b6691601 . _:b421656226 "2"^^ . _:b421655576 . _:b6691600 . _:b421655783 . . _:b421656299 . _:b421656237 "2"^^ . _:b421655579 . _:b6691603 . _:b421656236 "2"^^ . _:b421655578 . . _:b421656239 "2"^^ . _:b421655589 . _:b421656044 . _:b421656238 "2"^^ . _:b421655588 . _:b421655813 . _:b421656233 "2"^^ . _:b421656488 . _:b421655591 . _:b421656232 "2"^^ . _:b421656448 . _:b421655590 . _:b421656235 "2"^^ . _:b421655905 . _:b421655403 . _:b421655974 . _:b421655585 . _:b421656502 . _:b421656234 "2"^^ . _:b421655584 . . _:b421656245 "2"^^ . _:b421655587 . _:b421655322 . _:b421656069 . _:b421656244 "2"^^ . _:b421655586 . _:b421656247 "2"^^ . _:b421655597 . _:b421656246 "2"^^ . _:b421655596 . . . _:b421656241 "2"^^ . _:b421655599 . . _:b421656240 "2"^^ . . _:b421655598 . . _:b421656243 "2"^^ . . _:b421655593 . _:b421656242 "2"^^ . _:b421655592 . . . _:b421656253 "2"^^ . _:b421655595 . _:b421656252 "2"^^ . . _:b421655594 . _:b421656255 "2"^^ . _:b421655605 . _:b421656254 "2"^^ . _:b421656545 . . . _:b421655604 . _:b421656249 "2"^^ . . _:b421655607 . . . . _:b421656248 "2"^^ . _:b421655606 . _:b421656454 . _:b421656251 "2"^^ . _:b421655601 . _:b421656250 "2"^^ . _:b421655600 . _:b421656261 "2"^^ . _:b421655603 . _:b421655683 . _:b421656260 "2"^^ . _:b421655602 . _:b421656485 . _:b421656281 . _:b421656263 "2"^^ . _:b421655613 . _:b421655936 . _:b421656262 "2"^^ . _:b421655612 . . _:b421656257 "2"^^ . _:b421656761 . . . _:b421655615 . _:b421656256 "2"^^ . _:b421655814 . . _:b421655765 . . _:b421655614 . . _:b421656259 "2"^^ . _:b421655609 . _:b421656258 "2"^^ . _:b421655608 . _:b421655509 . _:b421656269 "2"^^ . _:b421655611 . . . _:b421656268 "2"^^ . _:b421655737 . . _:b421655610 . _:b421656271 "2"^^ . . _:b421655621 . _:b421656270 "2"^^ . _:b421655620 . _:b421656157 . . _:b421656265 "2"^^ . _:b421655623 . _:b421655557 . _:b421656264 "2"^^ . _:b421655622 . _:b421655307 . _:b421656267 "2"^^ . . _:b421655543 . _:b421655617 . . _:b421656266 "2"^^ . _:b421656473 . _:b421655616 . _:b421656277 "2"^^ . _:b421655619 . _:b421656276 "2"^^ . _:b421655907 . _:b421655618 . _:b421656590 . _:b421655340 . _:b421656279 "2"^^ . _:b421655629 . _:b421656278 "2"^^ . . _:b421655628 . _:b421656273 "2"^^ . _:b421655631 . _:b421656547 . _:b421656272 "2"^^ . . . _:b421655630 . _:b421656253 . _:b421656275 "2"^^ . . _:b421655625 . . _:b421656274 "2"^^ . . _:b421655624 . . _:b421656285 "2"^^ . . _:b421655627 . . _:b421656284 "2"^^ . . _:b421655626 . _:b421656663 . _:b421656287 "2"^^ . _:b421655637 . _:b421656286 "2"^^ . _:b421655385 . _:b421656340 . . _:b421655636 . _:b421655473 . _:b421656362 . _:b421656281 "2"^^ . _:b421655639 . _:b421656280 "2"^^ . _:b421655638 . _:b421656283 "2"^^ . . _:b421655633 . _:b421656020 . _:b421656282 "2"^^ . _:b421655632 . _:b421656126 . _:b421656293 "2"^^ . _:b421655635 . _:b421656292 "2"^^ . _:b421655634 . . _:b421656295 "2"^^ . _:b421655645 . . _:b421656294 "2"^^ . . _:b421655644 . _:b421656289 "2"^^ . _:b421655647 . _:b421655336 . _:b421656288 "2"^^ . _:b421655545 . _:b421655646 . _:b6691607 . _:b421656291 "2"^^ . _:b421655641 . _:b421656290 "2"^^ . _:b421655640 . . _:b421656301 "2"^^ . _:b421655643 . _:b421656655 . . _:b421656300 "2"^^ . _:b421655642 . _:b421656303 "2"^^ . _:b421655653 . _:b421656302 "2"^^ . _:b421655652 . . _:b421655786 . . _:b421656297 "2"^^ . _:b421656011 . _:b421655902 . _:b421656704 . _:b421655655 . _:b421655361 . _:b421656296 "2"^^ . _:b421655654 . _:b421655705 . _:b421656299 "2"^^ . _:b421656331 . _:b421655649 . _:b421655346 . _:b421656298 "2"^^ . _:b421655648 . _:b421655526 . _:b421656309 "2"^^ . _:b421655651 . _:b421656308 "2"^^ . _:b421655650 . _:b421656311 "2"^^ . _:b421655661 . _:b421656310 "2"^^ . . _:b421655660 . _:b421656552 . _:b421656305 "2"^^ . _:b421655663 . _:b421656304 "2"^^ . _:b421655662 . _:b421655741 . . _:b421656307 "2"^^ . _:b421655657 . . _:b421656306 "2"^^ . _:b421655656 . _:b421656317 "2"^^ . _:b421655659 . _:b6691614 "We have previously termed these small DNA fragments \u201Cgenomic shards\u201D>>10<<,17." . _:b421656316 "2"^^ . _:b421656607 . _:b421655658 . . . _:b421656319 "2"^^ . . _:b421655669 . _:b421656318 "2"^^ . _:b421655668 . _:b421655313 . _:b421656313 "2"^^ . _:b421655426 . _:b421655671 . _:b421656312 "2"^^ . _:b421655670 . _:b6691621 "Conversely most from amplified regions do not and these rearrangements probably represent fragments of one or both genes reflecting the high density of rearrangements often present in these regions>>10<<. Sixty-six in-frame internally rearranged genes were also identified. 39/58 assessed showed rearranged transcripts (Table 4). In some cancers multiple in-frame rearranged and expressed genes are present (Tables 3 and 4, Supplementary" . _:b421656835 . _:b421656315 "2"^^ . _:b421656051 . _:b421655665 . _:b421655482 . . _:b421656314 "2"^^ . _:b421655681 . _:b421655664 . _:b421655977 . _:b421656325 "2"^^ . _:b421655667 . _:b421656324 "2"^^ . _:b421655947 . _:b421655666 . _:b421656327 "2"^^ . . _:b421655677 . _:b421656121 . _:b421656326 "2"^^ . _:b421655676 . _:b421655982 . . _:b421656321 "2"^^ . _:b421656287 . _:b421655679 . . . _:b421656320 "2"^^ . _:b421656701 . _:b421655678 . . _:b421656525 . _:b421656323 "2"^^ . _:b421656219 . _:b421655673 . _:b421656322 "2"^^ . _:b421655672 . . . _:b421656276 . _:b421656333 "2"^^ . _:b421655675 . . _:b421656332 "2"^^ . _:b421655635 . _:b421656264 . _:b421655674 . _:b421656335 "2"^^ . _:b421656386 . _:b421655591 . _:b421655685 . . _:b421656334 "2"^^ . _:b421655684 . _:b421656329 "2"^^ . _:b421656032 . _:b421656623 . _:b421655687 . . _:b421656615 . . _:b421656328 "2"^^ . _:b421655686 . . _:b421656331 "2"^^ . _:b421655681 . _:b421656330 "2"^^ . . _:b421655680 . _:b421656341 "2"^^ . . _:b421655683 . . _:b421656340 "2"^^ . _:b421655682 . _:b421656640 . . _:b421656343 "2"^^ . _:b421655693 . _:b421656400 . _:b421656342 "2"^^ . _:b421655692 . . _:b421656337 "2"^^ . _:b421655695 . _:b421656336 "2"^^ . _:b421655694 . _:b421656339 "2"^^ . _:b421656063 . _:b421655689 . _:b421656338 "2"^^ . _:b421655688 . _:b421655381 . . _:b421656349 "2"^^ . _:b421655691 . _:b421656348 "2"^^ . . _:b421655690 . . _:b421656351 "2"^^ . _:b421655701 . _:b421655649 . _:b421656350 "2"^^ . _:b421655700 . . _:b421656345 "2"^^ . . _:b421655703 . _:b421656330 . _:b421656691 . _:b421656344 "2"^^ . _:b421655702 . _:b421656468 . _:b421656266 . _:b421656347 "2"^^ . _:b421655697 . . _:b421656676 . _:b421656346 "2"^^ . _:b421655696 . _:b421656357 "2"^^ . . _:b421655699 . _:b421656356 "2"^^ . _:b421655698 . _:b421656359 "2"^^ . _:b6691610 "We recently demonstrated that second generation sequencing of both ends of large numbers of DNA fragments generated from cancer genomes allows comprehensive characterisation of rearrangements>>17<<. Here we apply this approach to a series of breast cancers to explore patterns of rearrangement and their potential contribution to cancer development." . _:b421655709 . . _:b421656358 "2"^^ . _:b421655708 . . _:b421656353 "2"^^ . . _:b421655711 . _:b421656352 "2"^^ . _:b421655710 . _:b421655496 . _:b421655551 . _:b421656355 "2"^^ . _:b421655705 . _:b421656354 "2"^^ . _:b421655704 . _:b421656445 . . . _:b421656365 "2"^^ . _:b421655707 . _:b421656364 "2"^^ . _:b421656460 . _:b421655706 . _:b421656367 "2"^^ . . _:b421655717 . _:b421656531 . _:b421655964 . _:b421656366 "2"^^ . _:b421655716 . . _:b421655558 . _:b421656361 "2"^^ . _:b421655751 . . _:b421655719 . _:b421656360 "2"^^ . _:b421655718 . _:b421656363 "2"^^ . _:b421655713 . . _:b421656362 "2"^^ . _:b421655712 . _:b421656373 "2"^^ . _:b421656467 . _:b421655715 . _:b421656372 "2"^^ . . _:b421655714 . . _:b421656375 "2"^^ . _:b421656601 . _:b421655725 . . . _:b421656374 "2"^^ . . . _:b421655724 . _:b421656369 "2"^^ . _:b421655727 . _:b421656829 . _:b421656368 "2"^^ . _:b421655726 . . _:b421656371 "2"^^ . _:b421655721 . _:b421656370 "2"^^ . _:b421655720 . _:b421656327 . . _:b421655833 . _:b421656381 "2"^^ . . _:b421655723 . _:b421656380 "2"^^ . _:b421655722 . _:b421655647 . _:b421656383 "2"^^ . _:b421655540 . _:b421655733 . _:b6691609 . . _:b421656382 "2"^^ . _:b421655732 . _:b421656377 "2"^^ . _:b421655735 . . _:b6691625 "Here, ETV6 was fused to ITPR2 (Figure 3) through an inversion involving intron 2, a site previously reported in other cancers>>23<<, and was rearranged in a further breast cancer without clearly forming an in-frame fusion gene." . _:b421656376 "2"^^ . _:b421656399 . _:b421655734 . _:b421656379 "2"^^ . _:b421655729 . _:b421656378 "2"^^ . _:b421655728 . . _:b421656389 "2"^^ . _:b421655731 . _:b421656088 . _:b421656388 "2"^^ . _:b421656442 . _:b421655730 . _:b421656391 "2"^^ . _:b421655741 . _:b421656390 "2"^^ . _:b421655740 . _:b421656398 . _:b421655580 . _:b421656385 "2"^^ . _:b421656341 . _:b421655743 . . . _:b421656104 . _:b421656384 "2"^^ . . _:b421655742 . _:b421656387 "2"^^ . _:b421655737 . . _:b421655341 . _:b421656386 "2"^^ . _:b421655736 . _:b421656397 "2"^^ . _:b421655739 . _:b421656092 . . _:b421656396 "2"^^ . _:b421655738 . _:b421655302 . _:b421656399 "2"^^ . _:b421655431 . _:b421655749 . _:b6691601 "Somatic rearrangement is a common mechanism for the conversion of normal genes into cancer genes>>1<<-5. Indeed, of the ~400 genes that are currently known to be somatically mutated and implicated in cancer development, most are altered by genomic rearrangement (http:" . _:b421656376 . _:b421656398 "2"^^ . _:b421655748 . _:b421656393 "2"^^ . _:b421655751 . _:b421656392 "2"^^ . . _:b421655750 . _:b421656758 . _:b421656395 "2"^^ . _:b421655745 . _:b421656394 "2"^^ . _:b421655744 . _:b421656405 "2"^^ . _:b421655747 . . _:b421656404 "2"^^ . . . _:b421655746 . _:b421655339 . _:b421656407 "2"^^ . _:b421655757 . _:b421656406 "2"^^ . _:b421655756 . _:b421656818 . . _:b421656401 "2"^^ . _:b421655759 . . _:b421656400 "2"^^ . _:b421655758 . _:b421656319 . _:b421656403 "2"^^ . _:b421655753 . _:b421655771 . _:b421656402 "2"^^ . _:b421655752 . _:b421656413 "2"^^ . . _:b421655755 . . . _:b421656412 "2"^^ . . _:b421655754 . _:b421656415 "2"^^ . _:b421655472 . _:b421655765 . . _:b421656414 "2"^^ . _:b421655602 . _:b421655764 . . _:b421656409 "2"^^ . _:b421655512 . _:b421655767 . _:b421655739 . _:b421656408 "2"^^ . _:b421655766 . _:b421655796 . _:b421656411 "2"^^ . . _:b421655761 . _:b421655495 . _:b421656410 "2"^^ . . . _:b421655760 . _:b421656421 "2"^^ . . _:b421655763 . . . _:b421656420 "2"^^ . _:b6691623 "ETV6 is rearranged to form cancer genes with multiple different fusion partners in leukaemias23, congenital fibrosarcoma>>24<< and myelodysplastic syndrome." . _:b421655762 . _:b421656381 . _:b421656423 "2"^^ . _:b421655773 . _:b421655643 . _:b421656422 "2"^^ . _:b421655772 . _:b421655956 . _:b421656417 "2"^^ . _:b421655775 . . . _:b421656416 "2"^^ . . _:b421655774 . _:b421656419 "2"^^ . _:b421655769 . . . _:b421656418 "2"^^ . _:b421655768 . _:b421656188 . _:b421656729 . . _:b421656429 "2"^^ . _:b421655928 . _:b421655771 . . _:b421656428 "2"^^ . _:b421656267 . _:b421655770 . . _:b421656431 "2"^^ . _:b421655781 . . _:b421656430 "2"^^ . _:b421655780 . _:b421656425 "2"^^ . _:b421655478 . _:b421655783 . _:b421656424 "2"^^ . _:b421655782 . . _:b421656427 "2"^^ . _:b421655777 . . _:b421656426 "2"^^ . . _:b421656193 . _:b421655776 . _:b421656437 "2"^^ . . _:b421655779 . _:b421656436 "2"^^ . _:b421655778 . _:b421656068 . _:b421656439 "2"^^ . _:b421655789 . _:b421656438 "2"^^ . _:b421655788 . _:b421656433 "2"^^ . _:b421655791 . _:b421656432 "2"^^ . _:b421655790 . . . _:b421656435 "2"^^ . _:b421655785 . _:b421656434 "2"^^ . _:b421655784 . _:b421655882 . _:b421656445 "2"^^ . _:b421655787 . _:b421656444 "2"^^ . _:b6691633 "BAC DNA was labelled with either biotin or digoxygenin-l I-dUTP (Roche) using the Bioprime kit (Invitrogen) and FISH was performed as described previously>>36<<. Biotinylated probes were detected with Cy5\u2013Streptavidin (Invitrogen, Zymed Laboratories) and digoxigenin-labeled BACs, with anti-digoxigenin-fluorescein, Roche (green). Nuclei and chromosomes were counterstained with DAPI. Images were" . _:b421655786 . _:b421655586 . _:b421656447 "2"^^ . _:b421655797 . _:b421656446 "2"^^ . _:b421655796 . _:b421656432 . _:b421656441 "2"^^ . _:b421655598 . _:b421655799 . . _:b421656440 "2"^^ . _:b421655798 . . _:b421656443 "2"^^ . _:b421655793 . _:b421655790 . _:b421656442 "2"^^ . _:b421655792 . _:b421656453 "2"^^ . _:b421656249 . _:b421655795 . _:b421656452 "2"^^ . _:b6691616 . _:b421655794 . . _:b421656455 "2"^^ . . _:b421656577 . _:b421655805 . _:b421656822 . _:b421656454 "2"^^ . _:b421655804 . . _:b421656777 . . _:b421656449 "2"^^ . _:b421655807 . _:b421656448 "2"^^ . _:b421656641 . _:b421655806 . _:b421656208 . _:b421656451 "2"^^ . . _:b421655801 . _:b421656450 "2"^^ . _:b421655800 . . _:b421655451 . _:b421656461 "2"^^ . . _:b421655803 . _:b421656460 "2"^^ . . . . _:b421655769 . . _:b421655802 . . . . _:b421656463 "2"^^ . _:b421656462 "2"^^ . _:b421655629 . _:b421656457 "2"^^ . _:b421656374 . _:b421656191 . _:b421655303 . . _:b421656456 "2"^^ . . _:b421655302 . _:b421656459 "2"^^ . . _:b421655926 . _:b421656458 "2"^^ . _:b421656469 "2"^^ . _:b421656468 "2"^^ . . _:b421656471 "2"^^ . _:b421655309 . _:b421656470 "2"^^ . _:b421655308 . _:b421656465 "2"^^ . _:b421655311 . _:b421655757 . _:b421656464 "2"^^ . _:b421655310 . _:b421656467 "2"^^ . _:b421655554 . _:b6691640 . _:b421655305 . _:b421655711 . . _:b421656466 "2"^^ . _:b421655596 . _:b421655304 . _:b421656477 "2"^^ . _:b421655307 . _:b421655443 . _:b421656476 "2"^^ . _:b421656294 . _:b421655306 . _:b421656840 . _:b421656779 . _:b421656479 "2"^^ . _:b421655317 . . _:b421656478 "2"^^ . _:b421655588 . . _:b421655316 . . _:b421656473 "2"^^ . _:b421655319 . _:b421656472 "2"^^ . _:b421655318 . _:b421656475 "2"^^ . _:b421655313 . _:b421656273 . _:b421656474 "2"^^ . _:b421655312 . _:b421655528 . _:b421656485 "2"^^ . _:b421655315 . . _:b421656484 "2"^^ . _:b421656183 . . . . _:b421655651 . _:b421655314 . _:b421656198 . . _:b421656487 "2"^^ . _:b421656158 . _:b421655325 . _:b421656486 "2"^^ . _:b421655324 . . _:b421656481 "2"^^ . . _:b421656768 . _:b421655327 . . _:b421656480 "2"^^ . _:b421655326 . . . _:b421656668 . _:b421656483 "2"^^ . . _:b421655321 . _:b6691613 "By contrast, in others they cluster in and connect genomic regions showing amplification. The rearrangement architecture in such amplicons is often highly complex10,>>11<<." . . _:b421656482 "2"^^ . _:b421655942 . _:b421655320 . . . _:b421656493 "2"^^ . _:b421655323 . _:b421656492 "2"^^ . . _:b421655322 . _:b421656495 "2"^^ . _:b421656636 . _:b421655333 . _:b421656494 "2"^^ . _:b421655332 . . _:b421656489 "2"^^ . _:b421656370 . _:b421655335 . _:b421656488 "2"^^ . . _:b421656089 . _:b421656035 . _:b421655334 . _:b421656491 "2"^^ . _:b421655329 . _:b421656332 . _:b421656490 "2"^^ . _:b421655328 . . . _:b421656501 "2"^^ . _:b421655331 . _:b421656447 . . _:b421656500 "2"^^ . . _:b421655330 . . . _:b421656503 "2"^^ . _:b421655341 . . _:b421656502 "2"^^ . _:b421656102 . _:b421655340 . _:b421655370 . _:b421656497 "2"^^ . . _:b421655343 . _:b421656496 "2"^^ . _:b421655342 . _:b421656499 "2"^^ . _:b421655337 . . _:b421656498 "2"^^ . . _:b421655336 . _:b421656509 "2"^^ . _:b421655339 . _:b421656269 . _:b421656508 "2"^^ . _:b421656143 . _:b421655338 . _:b421655327 . _:b421656216 . _:b421656511 "2"^^ . . _:b421655349 . . _:b421656251 . _:b421656510 "2"^^ . _:b421655348 . _:b6691609 . . _:b421656505 "2"^^ . _:b421655351 . _:b421656638 . . _:b421656504 "2"^^ . _:b421655350 . _:b421656507 "2"^^ . _:b421655345 . . _:b421656303 . _:b421656506 "2"^^ . _:b421655344 . . _:b421656517 "2"^^ . _:b421655347 . _:b421655550 . _:b421656516 "2"^^ . _:b421655346 . . _:b421656519 "2"^^ . . _:b421655357 . _:b421655653 . _:b421656518 "2"^^ . _:b421655356 . _:b421656513 "2"^^ . _:b421655359 . . _:b421656512 "2"^^ . _:b421655358 . . _:b421656515 "2"^^ . _:b421655353 . _:b421655531 . _:b421655676 . _:b421656514 "2"^^ . _:b421655352 . . _:b421656525 "2"^^ . _:b421655355 . . . _:b421656524 "2"^^ . _:b421655354 . _:b421656527 "2"^^ . _:b421655365 . _:b421656526 "2"^^ . _:b421655969 . _:b421655364 . _:b421656588 . _:b421656521 "2"^^ . . _:b421655367 . _:b421656520 "2"^^ . _:b421655366 . _:b421655490 . _:b421656523 "2"^^ . _:b421655361 . _:b421655475 . _:b421656837 . _:b421656522 "2"^^ . _:b421655360 . _:b421656836 . _:b421656533 "2"^^ . . _:b421655363 . _:b421656839 . _:b421656532 "2"^^ . _:b421655362 . . _:b421656838 . _:b421656535 "2"^^ . _:b421655373 . . _:b421656833 . _:b421656534 "2"^^ . _:b421655372 . _:b421656555 . _:b421656832 . . _:b421656529 "2"^^ . . _:b421655375 . _:b421656835 . _:b421656528 "2"^^ . _:b421655374 . _:b421656558 . _:b421656834 . _:b421656531 "2"^^ . . _:b421655823 . _:b421655369 . _:b421656845 . _:b421656530 "2"^^ . _:b421655489 . _:b421655368 . _:b421656769 . _:b421656844 . _:b421656541 "2"^^ . _:b421655371 . _:b421656847 . _:b421656540 "2"^^ . _:b421655370 . _:b421656548 . _:b421656846 . _:b421656543 "2"^^ . _:b421655381 . _:b421656841 . _:b421655556 . _:b421656542 "2"^^ . _:b421655380 . _:b421656840 . _:b421656537 "2"^^ . _:b421655383 . _:b421656843 . _:b421656536 "2"^^ . _:b421655382 . _:b421655701 . _:b421656842 . _:b421656539 "2"^^ . _:b421655377 . _:b421656853 . _:b421655469 . _:b421656538 "2"^^ . . _:b421655376 . _:b421656852 . _:b421656119 . _:b421656557 . _:b421656549 "2"^^ . _:b421655379 . . _:b421656855 . _:b421656548 "2"^^ . _:b421655378 . _:b421656854 . _:b421656551 "2"^^ . . _:b421655389 . _:b421656849 . _:b421656550 "2"^^ . _:b421655388 . _:b421656848 . _:b421656857 . _:b421656545 "2"^^ . _:b421655391 . _:b421656851 . _:b421656544 "2"^^ . _:b421655390 . . _:b421656850 . _:b421656150 . _:b421656547 "2"^^ . _:b421655385 . . _:b421656546 "2"^^ . _:b421655384 . . _:b421656557 "2"^^ . _:b421655387 . . . _:b421656556 "2"^^ . _:b421655386 . _:b421656673 . _:b421656559 "2"^^ . _:b421655851 . _:b421655397 . _:b421656857 . _:b421656558 "2"^^ . _:b421655929 . _:b421655396 . _:b421656598 . . . _:b421656856 . _:b421656553 "2"^^ . _:b421655399 . . . _:b421656552 "2"^^ . _:b421655350 . _:b421655398 . . _:b421656555 "2"^^ . _:b421656061 . _:b421655393 . . _:b421656554 "2"^^ . _:b421655392 . . _:b421656565 "2"^^ . _:b421655395 . _:b421656564 "2"^^ . _:b421655394 . _:b421655516 . _:b421656567 "2"^^ . . . _:b421655405 . _:b421656566 "2"^^ . _:b421655404 . _:b421656561 "2"^^ . _:b421656652 . _:b421655407 . _:b421656560 "2"^^ . _:b421655406 . . . . _:b421656563 "2"^^ . _:b421655856 . . _:b421655401 . _:b421656562 "2"^^ . _:b421655400 . _:b421656573 "2"^^ . _:b421656737 . _:b421655403 . . _:b421656364 . _:b421656572 "2"^^ . _:b421655402 . _:b421655825 . _:b421656575 "2"^^ . _:b421655413 . _:b421656574 "2"^^ . _:b421655412 . . _:b421656250 . _:b421656569 "2"^^ . _:b421655415 . _:b421656568 "2"^^ . _:b421655414 . _:b421656571 "2"^^ . _:b421656786 . . _:b421655409 . _:b421656107 . _:b421656570 "2"^^ . _:b421655408 . _:b421656772 . _:b421655411 . _:b421655557 "4"^^ . _:b421656384 . _:b421655410 . _:b421656833 . _:b421655556 "4"^^ . . . _:b421655368 . _:b421655686 . _:b421655559 "4"^^ . . _:b421655421 . . _:b421655420 . . _:b421655558 "4"^^ . _:b421655423 . _:b421656534 . _:b421655553 "4"^^ . _:b421655898 . _:b421655422 . _:b421655552 "4"^^ . _:b421655417 . _:b421655688 . _:b421655555 "4"^^ . _:b421656111 . . _:b421655416 . _:b421655554 "4"^^ . . _:b421655419 . _:b421655565 "4"^^ . . _:b421655418 . _:b421656469 . _:b421655564 "4"^^ . _:b421655429 . _:b421655567 "4"^^ . . _:b421655428 . _:b421655566 "4"^^ . _:b421655431 . _:b421655561 "4"^^ . . _:b421655430 . _:b421655560 "4"^^ . _:b421655914 . _:b421655876 . _:b421655425 . _:b421655563 "4"^^ . . _:b421655424 . _:b421655562 "4"^^ . _:b421656048 . _:b421655620 . _:b421655427 . _:b421655573 "4"^^ . . _:b421655426 . _:b421655572 "4"^^ . _:b421655437 . _:b421655575 "4"^^ . _:b421656018 . . _:b421655436 . _:b421655574 "4"^^ . _:b421655439 . _:b421655569 "4"^^ . _:b421655438 . _:b421655568 "4"^^ . . . . _:b421655433 . _:b421655571 "4"^^ . _:b421655391 . _:b421655432 . _:b421655570 "4"^^ . . _:b421655435 . _:b421655581 "4"^^ . _:b421655434 . _:b421655580 "4"^^ . _:b421655690 . . . _:b421655445 . _:b421655583 "4"^^ . _:b421655444 . _:b6691631 "A binary circular segmentation algorithm originally developed for genomic hybridisation microarray data>>35<< was applied to these raw plots to identify change-points in copy number by iterative binary segmentation." . _:b421655582 "4"^^ . _:b421655628 . _:b421656321 . _:b421655447 . _:b421655577 "4"^^ . . _:b421655446 . _:b421655576 "4"^^ . _:b421656228 . _:b421655441 . _:b421655579 "4"^^ . . . _:b421655440 . _:b421655578 "4"^^ . . . _:b421655443 . . _:b421655589 "4"^^ . _:b421655442 . _:b421655588 "4"^^ . _:b421655453 . _:b421655591 "4"^^ . . _:b421655452 . _:b421655590 "4"^^ . . _:b421656657 . _:b421656071 . _:b421655455 . _:b421656325 . _:b421655585 "4"^^ . _:b421655665 . _:b421655584 "4"^^ . _:b421655454 . _:b421656093 . . _:b421655920 . _:b421655449 . _:b421655587 "4"^^ . _:b421656017 . _:b421655448 . _:b421656138 . _:b421655586 "4"^^ . . _:b421655673 . _:b421655451 . _:b421655597 "4"^^ . . _:b421655450 . _:b421655596 "4"^^ . . _:b6691622 "ETV6 is rearranged to form cancer genes with multiple different fusion partners in leukaemias>>23<<, congenital fibrosarcoma24 and myelodysplastic syndrome." . . _:b421655461 . _:b421655599 "4"^^ . . _:b421655460 . _:b421655598 "4"^^ . _:b421656759 . . _:b421655593 "4"^^ . _:b421655463 . . _:b421655592 "4"^^ . _:b421655462 . . . _:b6691599 . _:b421655457 . _:b421655595 "4"^^ . _:b421656645 . _:b421655456 . _:b421655594 "4"^^ . _:b421655459 . _:b421655605 "4"^^ . _:b421655458 . _:b421655604 "4"^^ . _:b421655469 . _:b421655607 "4"^^ . _:b6691604 . _:b421655911 . _:b421655468 . _:b421655606 "4"^^ . . _:b6691605 . _:b421655471 . _:b421655601 "4"^^ . _:b6691606 . _:b421655470 . _:b421655600 "4"^^ . . _:b421655962 . _:b6691607 . _:b421655465 . _:b421656210 . _:b421655603 "4"^^ . . _:b6691600 . _:b421655464 . _:b421655602 "4"^^ . _:b6691601 . . _:b6691637 . _:b421655467 . _:b421655613 "4"^^ . _:b6691602 . _:b421655466 . _:b421655612 "4"^^ . _:b6691603 . _:b421655477 . _:b421655615 "4"^^ . _:b421656083 . _:b6691612 . _:b421656261 . _:b421655476 . _:b421655614 "4"^^ . . _:b6691613 . _:b421655479 . _:b421656430 . _:b421655609 "4"^^ . _:b421655845 . _:b6691614 . _:b421655478 . _:b421655608 "4"^^ . _:b6691615 . _:b421655473 . _:b421655611 "4"^^ . . _:b421656559 . _:b6691608 . _:b6691632 . _:b421655472 . _:b421655610 "4"^^ . . _:b6691609 . _:b6691633 . _:b421655475 . _:b421655621 "4"^^ . _:b6691610 . . _:b421655474 . _:b421655620 "4"^^ . _:b421656429 . _:b6691611 . _:b421655485 . _:b421655623 "4"^^ . . _:b6691620 . . _:b421655484 . _:b421655622 "4"^^ . . _:b6691621 . _:b421655487 . _:b421655617 "4"^^ . _:b6691622 . _:b421655486 . . _:b421655616 "4"^^ . _:b6691623 . _:b421655481 . _:b421655619 "4"^^ . _:b421656643 . _:b6691616 . _:b421655480 . _:b421655618 "4"^^ . _:b421655386 . _:b6691617 . _:b421655483 . _:b421655629 "4"^^ . _:b6691618 . _:b421656705 . _:b421655482 . . _:b421655628 "4"^^ . _:b6691619 . _:b421655493 . _:b421655631 "4"^^ . . _:b6691628 . _:b421656591 . _:b421655492 . _:b421655630 "4"^^ . _:b6691629 . _:b421655495 . _:b421655625 "4"^^ . _:b6691630 . _:b421655494 . _:b421655624 "4"^^ . _:b6691631 . . _:b6691639 . _:b421656392 . _:b421655489 . _:b421655627 "4"^^ . _:b421655468 . . _:b6691624 . _:b421655860 . _:b421655626 "4"^^ . _:b421655488 . _:b6691625 . _:b421655491 . _:b421655637 "4"^^ . _:b6691626 . _:b421655490 . _:b421655636 "4"^^ . . _:b421656047 . _:b421655511 . _:b6691627 . _:b421656851 . . _:b421655639 "4"^^ . _:b421655501 . _:b6691636 . _:b421655500 . _:b421656192 . _:b421655638 "4"^^ . _:b6691637 . _:b421655883 . _:b421655633 "4"^^ . _:b421655503 . _:b6691638 . _:b421655502 . _:b421655632 "4"^^ . . _:b6691639 . _:b421655497 . _:b421655635 "4"^^ . _:b6691632 . _:b421655496 . _:b421655634 "4"^^ . _:b421656155 . _:b6691633 . _:b421655499 . _:b421655645 "4"^^ . _:b6691634 . _:b421655498 . _:b421655644 "4"^^ . _:b6691635 . _:b421655509 . _:b421655647 "4"^^ . _:b6691644 . _:b421655428 . _:b421655646 "4"^^ . _:b421655508 . _:b6691645 . _:b421655511 . _:b421655641 "4"^^ . _:b421655510 . _:b421655640 "4"^^ . . _:b421655643 "4"^^ . _:b421655505 . _:b6691640 . _:b421655504 . _:b421655642 "4"^^ . _:b6691641 . _:b421655507 . _:b421655576 . _:b421655653 "4"^^ . _:b6691642 . _:b421655506 . _:b421655652 "4"^^ . _:b6691643 . . _:b421655517 . _:b421655655 "4"^^ . _:b421655516 . _:b421655654 "4"^^ . _:b421655519 . _:b421655649 "4"^^ . _:b421655518 . _:b421655648 "4"^^ . . _:b421655513 . _:b421655651 "4"^^ . . _:b421655512 . _:b421655650 "4"^^ . _:b421655515 . _:b421655661 "4"^^ . . _:b421655514 . _:b421655660 "4"^^ . . . . _:b421655663 "4"^^ . _:b421655525 . _:b421655524 . _:b421655662 "4"^^ . _:b6691642 "Subclasses defined in these ways show correlations with patterns of genomic alteration31,>>32<<. Breast cancers with many tandem duplications are usually estrogen and progesterone receptor negative and classified by expression profile as basal-like. In contrast, cancers with few rearrangements or with rearrangements within amplicons" . _:b421655527 . _:b421655657 "4"^^ . _:b421655526 . _:b421655656 "4"^^ . . _:b421656797 . . _:b6691606 . _:b421655521 . _:b421655659 "4"^^ . _:b421655614 . _:b421655520 . _:b421655658 "4"^^ . _:b421656785 . _:b421655523 . _:b421655669 "4"^^ . _:b421656616 . _:b421655522 . _:b421655668 "4"^^ . _:b421655533 . _:b421655671 "4"^^ . . _:b421655670 "4"^^ . _:b421655532 . _:b421655535 . _:b421655665 "4"^^ . _:b421655534 . _:b421655664 "4"^^ . _:b421655529 . _:b421655667 "4"^^ . _:b421656052 . _:b421655528 . _:b421655666 "4"^^ . . _:b421655531 . _:b421655677 "4"^^ . _:b421655530 . _:b421655676 "4"^^ . _:b421655897 . _:b421656241 . . _:b421655541 . _:b421655679 "4"^^ . . . _:b421655678 "4"^^ . _:b421655540 . . _:b421655543 . _:b421655673 "4"^^ . _:b421655542 . _:b421655672 "4"^^ . _:b421655537 . _:b421655675 "4"^^ . . . _:b421655674 "4"^^ . _:b421655536 . _:b421655685 "3"^^ . _:b421655539 . _:b421655684 "3"^^ . _:b421655538 . _:b421656569 . _:b421655687 "3"^^ . _:b421655549 . _:b421656790 . _:b421656352 . _:b421655686 "3"^^ . _:b421655548 . _:b421655551 . _:b421655681 "4"^^ . _:b421655895 . _:b421655550 . _:b421655680 "4"^^ . . _:b421655683 "3"^^ . _:b421655545 . . _:b421655677 . _:b421655544 . _:b421656240 . _:b421655682 "4"^^ . _:b421655693 "3"^^ . _:b421655941 . _:b421655547 . . . _:b6691620 "These differences are unlikely to be due to chance (p<0.001) and suggest that there are at least two classes of NHEJ repair which are operative to different extents in different breast cancers>>21<<." . _:b421655692 "3"^^ . _:b421655546 . _:b421655695 "3"^^ . _:b421655694 "3"^^ . . . _:b421655689 "3"^^ . _:b421655494 . . _:b421655688 "3"^^ . . . . _:b421655691 "3"^^ . _:b421655816 . _:b421655690 "3"^^ . _:b421656743 . _:b421655701 "3"^^ . _:b421655700 "3"^^ . . _:b421656103 . _:b421656078 . _:b421655703 "3"^^ . _:b421655702 "3"^^ . . _:b421655699 . . _:b421655697 "3"^^ . . _:b421655696 "3"^^ . . . . _:b421655699 "3"^^ . _:b421655698 "3"^^ . _:b421656135 . _:b421655709 "3"^^ . _:b421656721 . _:b421655708 "3"^^ . _:b421655744 . _:b421656316 . _:b421655711 "3"^^ . _:b421656412 . _:b421655972 . _:b421656189 . _:b421655710 "3"^^ . _:b421656315 . . _:b6691608 . . _:b421655946 . _:b421655533 . _:b421655705 "3"^^ . _:b421655704 "3"^^ . _:b421656170 . _:b421655707 "3"^^ . _:b421655838 . _:b421655847 . _:b421655706 "3"^^ . _:b6691612 . _:b421655717 "3"^^ . _:b421655716 "3"^^ . _:b6691614 . _:b421655719 "3"^^ . _:b421655718 "3"^^ . _:b421655623 . . _:b421655713 "3"^^ . . . . . . _:b421655712 "3"^^ . _:b421656060 . . _:b421655715 "3"^^ . . _:b421655714 "3"^^ . . . _:b421655725 "3"^^ . _:b421656609 . _:b421655724 "3"^^ . _:b421656421 . _:b421655727 "3"^^ . _:b421655726 "3"^^ . _:b421655721 "3"^^ . . . . _:b421655720 "3"^^ . _:b421655723 "3"^^ . . _:b421655347 . _:b421655722 "3"^^ . . _:b421655733 "3"^^ . . _:b421655732 "3"^^ . . _:b421655735 "3"^^ . . _:b421655734 "3"^^ . . _:b421655729 "3"^^ . _:b421655728 "3"^^ . _:b421655731 "3"^^ . _:b421655730 "3"^^ . _:b421655674 . _:b421655741 "3"^^ . _:b421655740 "3"^^ . _:b421656686 . _:b421656715 . _:b421655743 "3"^^ . _:b421655766 . _:b421655742 "3"^^ . . _:b421655737 "3"^^ . _:b421655736 "3"^^ . _:b421655739 "3"^^ . . _:b421656736 . _:b421656307 . _:b6691635 . _:b421655738 "3"^^ . _:b421656122 . _:b421655749 "3"^^ . _:b421655873 . _:b421655748 "3"^^ . _:b421656563 . _:b421655751 "3"^^ . _:b421655743 . . _:b421655750 "3"^^ . _:b421656490 . _:b421656195 . _:b421655745 "3"^^ . _:b421656599 . _:b421656379 . _:b6691626 . _:b421655744 "3"^^ . _:b421656687 . _:b421655747 "3"^^ . _:b421656675 . _:b421655746 "3"^^ . _:b421655757 "3"^^ . _:b421655792 . _:b421656344 . . _:b421655756 "3"^^ . _:b6691611 . _:b421655759 "3"^^ . _:b421656411 . . _:b421655758 "3"^^ . . . _:b421655753 "3"^^ . _:b6691599 . _:b421655752 "3"^^ . _:b421655755 "3"^^ . _:b421656369 . . _:b421656581 . . _:b421655754 "3"^^ . _:b421656580 . _:b421655765 "3"^^ . _:b421655938 . _:b421656583 . _:b421655764 "3"^^ . _:b421655824 . . _:b421656582 . _:b421655767 "3"^^ . _:b421656577 . _:b421655766 "3"^^ . . _:b421656033 . _:b421656576 . _:b421656082 . _:b421655761 "3"^^ . _:b421656579 . _:b421655760 "3"^^ . . _:b421656578 . _:b421655763 "3"^^ . _:b421656589 . _:b6691621 . _:b421656066 . _:b421655762 "3"^^ . . _:b421655646 . _:b421656588 . _:b421656532 . _:b421655720 . _:b421655773 "3"^^ . . _:b421656591 . _:b421655772 "3"^^ . _:b421656590 . . _:b421655775 "3"^^ . _:b421656585 . _:b421655774 "3"^^ . _:b421656584 . _:b421655769 "3"^^ . _:b421656587 . . _:b6691616 . _:b421655768 "3"^^ . _:b421656586 . _:b6691617 . . _:b421655771 "3"^^ . _:b421656597 . _:b6691618 . _:b421655770 "3"^^ . . _:b421656371 . _:b421655706 . _:b421656596 . _:b421656423 . _:b421655781 "3"^^ . . _:b421656599 . _:b6691620 . _:b421655780 "3"^^ . _:b421656598 . _:b421655783 "3"^^ . . . . _:b421655943 . _:b421656593 . _:b421655782 "3"^^ . _:b421656770 . . _:b421656592 . . _:b421655777 "3"^^ . _:b421655799 . _:b421656595 . _:b421655776 "3"^^ . _:b421656594 . _:b421655944 . _:b421655779 "3"^^ . . _:b421656605 . _:b421656282 . _:b421655498 . _:b421655778 "3"^^ . _:b421656604 . . . _:b421656728 . _:b421655789 "3"^^ . _:b421656813 . _:b421656607 . _:b421655788 "3"^^ . . _:b421656606 . _:b421655791 "3"^^ . _:b421656601 . _:b421655328 . _:b421655790 "3"^^ . _:b421655670 . _:b421656600 . _:b421655785 "3"^^ . _:b421656603 . . . _:b421655784 "3"^^ . _:b421656080 . _:b421656602 . _:b421655787 "3"^^ . . _:b421656613 . . _:b421655786 "3"^^ . _:b421656612 . _:b421655797 "3"^^ . _:b421656730 . _:b421656441 . _:b421656615 . _:b421655796 "3"^^ . _:b421656614 . . _:b421655799 "3"^^ . _:b421655700 . _:b421656609 . _:b421655798 "3"^^ . _:b421656493 . _:b421656608 . . _:b421655793 "3"^^ . _:b421656611 . _:b421655792 "3"^^ . . _:b421656610 . . _:b421655795 "3"^^ . . _:b421656621 . _:b421655794 "3"^^ . _:b421655916 . _:b421655736 . _:b421656620 . _:b421655805 "3"^^ . _:b421656623 . _:b421655517 . _:b421655804 "3"^^ . _:b421656622 . _:b421655807 "3"^^ . _:b421655748 . _:b421656617 . . _:b421656480 . . _:b421655806 "3"^^ . _:b421656616 . _:b421655801 "3"^^ . _:b421656619 . _:b421655800 "3"^^ . _:b421656226 . _:b421656426 . . _:b421656618 . _:b421656610 . _:b421655561 . _:b421655803 "3"^^ . _:b421656629 . . _:b421655802 "3"^^ . . _:b421656628 . _:b421655640 . _:b421655813 "3"^^ . _:b421655959 . _:b421656631 . _:b421655812 "3"^^ . . _:b421656630 . _:b421655815 "3"^^ . . _:b421656625 . _:b421655814 "3"^^ . _:b6691624 "It also forms a rearranged cancer gene with NTRK3 in the rare subclass of secretory breast cancer>>25<<. Here, ETV6 was fused to ITPR2 (Figure 3) through an inversion involving intron 2, a site previously reported in other cancers23, and was rearranged in a further breast cancer without clearly forming an in-frame fusion gene. ITPR2 encodes" . _:b421656624 . . _:b421655809 "3"^^ . _:b421656627 . _:b421655808 "3"^^ . _:b421656626 . _:b421655811 "3"^^ . _:b421656112 . _:b421656637 . _:b421655810 "3"^^ . _:b421656635 . _:b421656636 . . _:b421655955 . _:b421655821 "3"^^ . _:b421655747 . _:b421655659 . _:b421656639 . _:b6691604 "Most of the currently known fusion genes are operative in leukaemias, lymphomas and sarcomas1,>>3<< although similar cancer-causing rearrangements in RET, NTRK1, NTRK3, BRAF and TFE3 were reported in rare epithelial cancers many years ago (http:" . _:b421655820 "3"^^ . _:b421656638 . _:b421655823 "3"^^ . _:b421656633 . _:b421655822 "3"^^ . _:b421655912 . _:b421655822 . _:b421656632 . _:b421656515 . _:b421655817 "3"^^ . _:b421656622 . . . _:b421655493 . _:b421656635 . _:b421655816 "3"^^ . _:b421656634 . . _:b421655819 "3"^^ . _:b421656526 . _:b421656645 . . _:b421655410 . _:b421655818 "3"^^ . _:b421656644 . _:b421655689 . _:b421655829 "3"^^ . _:b421656647 . _:b421656310 . _:b421655828 "3"^^ . _:b421656304 . _:b421656646 . _:b421655831 "3"^^ . _:b421655622 . _:b421656641 . _:b421655830 "3"^^ . _:b421656640 . . _:b421655825 "3"^^ . _:b421656647 . _:b421656631 . _:b421656643 . _:b421656062 . _:b421655824 "3"^^ . _:b421655801 . . . _:b421656642 . _:b421655827 "3"^^ . . _:b421655314 . _:b421656653 . _:b421655826 "3"^^ . _:b421655564 . _:b421656652 . _:b421656231 . _:b421655837 "3"^^ . . . _:b421656655 . _:b421655836 "3"^^ . _:b421655448 . _:b421656654 . _:b421655839 "3"^^ . _:b421656649 . _:b421655838 "3"^^ . . _:b421656648 . _:b421655833 "3"^^ . _:b421656651 . _:b421655832 "3"^^ . _:b421655537 . _:b421656650 . _:b421656173 . _:b421655835 "3"^^ . _:b421656661 . _:b421656437 . _:b421655834 "3"^^ . _:b421656660 . _:b421656706 . _:b421655845 "3"^^ . . _:b421656663 . _:b421655844 "3"^^ . . _:b421656662 . . . . _:b421655847 "3"^^ . _:b421656657 . . _:b421655878 . _:b421655846 "3"^^ . . _:b421656244 . _:b421655464 . _:b421656656 . . . _:b421656832 . _:b421655841 "3"^^ . _:b6691636 . _:b6691615 "We have previously termed these small DNA fragments \u201Cgenomic shards\u201D10,>>17<<." . _:b421656659 . . _:b421655840 "3"^^ . _:b421656845 . _:b421656658 . _:b421655843 "3"^^ . _:b421656365 . _:b421656669 . _:b421655842 "3"^^ . _:b421656668 . _:b421655853 "3"^^ . _:b421656666 . _:b421656671 . _:b421655852 "3"^^ . _:b421656670 . . _:b421655855 "3"^^ . _:b421655450 . _:b421656665 . . _:b421655854 "3"^^ . . _:b421656664 . _:b421655849 "3"^^ . _:b421656667 . . _:b421655848 "3"^^ . . _:b421656666 . . _:b421655851 "3"^^ . . _:b421655660 . . _:b421656677 . _:b421655850 "3"^^ . _:b421656676 . _:b421656843 . _:b421655861 "3"^^ . _:b421656612 . . _:b421656679 . _:b421655860 "3"^^ . _:b421656678 . _:b421655863 "3"^^ . _:b421656673 . _:b421655523 . _:b421655862 "3"^^ . . _:b421656672 . _:b421655857 "3"^^ . _:b421656675 . _:b421655856 "3"^^ . . _:b421656674 . _:b421655859 "3"^^ . _:b421656685 . _:b421655858 "3"^^ . _:b421656684 . _:b421655869 "3"^^ . . _:b421655465 . _:b421656687 . _:b421656314 . _:b421656110 . _:b421655868 "3"^^ . _:b421656686 . _:b421655871 "3"^^ . . _:b421656681 . _:b421656670 . _:b421655802 . _:b421656270 . _:b421655870 "3"^^ . _:b421656680 . . _:b421655865 "3"^^ . . _:b421656683 . _:b421655864 "3"^^ . _:b421656147 . _:b421656682 . _:b421655867 "3"^^ . . _:b421656628 . _:b421656693 . _:b421655866 "3"^^ . _:b421656692 . _:b421656333 . _:b421655877 "3"^^ . . _:b421656611 . _:b421656742 . _:b421656695 . . _:b421655876 "3"^^ . _:b421655693 . _:b421656694 . . _:b421655879 "3"^^ . _:b421656689 . _:b421655878 "3"^^ . _:b421656688 . _:b421655873 "3"^^ . _:b421656691 . _:b421655872 "3"^^ . _:b421656690 . _:b421656413 . _:b421655875 "3"^^ . . _:b421656701 . _:b421655874 "3"^^ . _:b421656496 . _:b421656700 . _:b421655885 "3"^^ . _:b421656703 . _:b421655884 "3"^^ . _:b421656702 . . _:b421655887 "3"^^ . _:b421656697 . _:b421655886 "3"^^ . . _:b421656696 . _:b421655881 "3"^^ . . _:b421656699 . _:b421655749 . _:b421655880 "3"^^ . _:b421655318 . _:b421656698 . _:b421655883 "3"^^ . _:b421655923 . _:b421656578 . _:b421656709 . _:b6691637 "Tandem duplications appear to be the most common subclass and are known to form activated cancer genes in other cancer types>>2627<<. The high prevalence of tandem duplications in a subset of cancers suggests the presence of a defect in DNA maintenance which generates this particular class of rearrangement. The underlying abnormality responsible for this phenotype is" . . _:b421655882 "3"^^ . _:b421656708 . _:b421655893 "3"^^ . _:b421656711 . . _:b421655892 "3"^^ . _:b421656710 . _:b421655895 "3"^^ . _:b421656705 . _:b421655894 "3"^^ . _:b421656576 . _:b421656704 . _:b421655615 . _:b421655889 "3"^^ . _:b421656707 . _:b421655888 "3"^^ . _:b421656476 . _:b421656706 . . _:b421655891 "3"^^ . _:b421656762 . _:b421656798 . _:b421656717 . _:b421656416 . _:b421655324 . _:b421655890 "3"^^ . _:b421655696 . _:b421656716 . _:b421655667 . _:b421655901 "3"^^ . _:b421656711 . _:b421656719 . _:b421656518 . _:b421656612 . _:b421655900 "3"^^ . _:b421656613 . _:b421656614 . _:b421656718 . _:b421656615 . _:b6691622 . _:b421656608 . _:b421655903 "3"^^ . _:b421656609 . _:b421656610 . _:b421656713 . _:b421655679 . _:b421656611 . . _:b421656620 . _:b421655902 "3"^^ . _:b421656621 . _:b421656622 . _:b421656712 . _:b421656623 . . _:b421656616 . _:b421655897 "3"^^ . _:b421656617 . _:b421656074 . _:b421656618 . _:b421656715 . . _:b421655437 . _:b421656619 . _:b421656628 . _:b6691624 . _:b421655896 "3"^^ . _:b421656629 . _:b421655698 . _:b421656630 . _:b421656714 . _:b421656631 . _:b421656624 . _:b421655573 . _:b421655899 "3"^^ . _:b421656625 . _:b421656626 . _:b421656725 . . _:b421656627 . _:b6691625 . _:b421656636 . . _:b421655898 "3"^^ . _:b421656637 . . _:b421656638 . _:b421656724 . _:b421656056 . _:b421656639 . _:b421656632 . _:b421655909 "3"^^ . _:b421656633 . . _:b421656634 . _:b421656727 . _:b421656635 . _:b421656703 . _:b421656580 . _:b421656855 . _:b421655908 "3"^^ . _:b421655984 . _:b421656581 . _:b421656582 . _:b421656726 . . _:b421656583 . _:b421656576 . _:b421655911 "3"^^ . _:b421656079 . _:b421656577 . _:b421656578 . _:b421656721 . . _:b421656579 . _:b421656588 . _:b421655910 "3"^^ . . _:b421656589 . _:b421656590 . _:b421656720 . . _:b421656591 . _:b421656584 . _:b421655905 "3"^^ . _:b421656585 . _:b421656586 . _:b421656723 . _:b421656587 . _:b421656596 . _:b421655904 "3"^^ . _:b421656597 . _:b421656598 . _:b421656722 . _:b421656599 . _:b421656592 . _:b421655907 "3"^^ . _:b421656593 . _:b421656594 . _:b421656733 . _:b421656595 . _:b421655605 . . _:b421656604 . _:b421655906 "3"^^ . _:b421656605 . _:b421656606 . _:b421656732 . . _:b421656607 . _:b421656600 . _:b421655917 "3"^^ . _:b421656601 . _:b421656778 . _:b421656602 . _:b421656735 . _:b421656603 . _:b421656676 . _:b421655916 "3"^^ . _:b421656677 . _:b421656678 . _:b421656734 . . _:b421656679 . . _:b421656672 . _:b421655919 "3"^^ . _:b421656673 . _:b421656674 . _:b421656729 . _:b421656675 . _:b421656424 . _:b421656684 . _:b421655918 "3"^^ . _:b421656685 . _:b421656686 . _:b421656728 . _:b421656687 . _:b421656680 . _:b421655913 "3"^^ . _:b421656681 . _:b421656298 . _:b421656682 . _:b421656731 . _:b421656683 . _:b421655518 . _:b421655912 "3"^^ . _:b421656692 . _:b421656693 . _:b421656694 . _:b421656730 . _:b421656695 . . _:b421656688 . _:b421655915 "3"^^ . _:b421655821 . _:b421656689 . _:b421656690 . _:b421656741 . _:b421655818 . . _:b421656691 . _:b421656596 . . _:b421656700 . _:b421655914 "3"^^ . _:b421656701 . _:b421656702 . _:b421656740 . _:b421656703 . _:b421656696 . _:b421655925 "3"^^ . _:b421656697 . _:b421656698 . _:b421656743 . _:b421656699 . _:b421656852 . _:b421656644 . _:b421655924 "3"^^ . _:b421656645 . _:b421656646 . _:b421656742 . . _:b421656647 . _:b421656640 . _:b421655927 "3"^^ . _:b421656641 . _:b421656642 . _:b421656737 . _:b421656643 . _:b421656652 . _:b421655926 "3"^^ . _:b421656653 . . _:b421656654 . _:b421656736 . _:b421656655 . _:b421656648 . _:b421655349 . _:b421655921 "3"^^ . _:b421656649 . _:b421656650 . _:b421656739 . _:b421656651 . _:b421656660 . _:b421655920 "3"^^ . _:b421656661 . _:b421656662 . _:b421656738 . _:b421656663 . _:b421656656 . _:b421655923 "3"^^ . _:b421656657 . _:b421656669 . . _:b421656658 . _:b421656749 . _:b421656659 . _:b421656659 . _:b421656668 . _:b421655922 "3"^^ . _:b421656669 . _:b421656670 . _:b421656748 . _:b421656671 . _:b421656664 . _:b421655933 "3"^^ . _:b421656665 . _:b421656666 . _:b421656751 . _:b421656667 . _:b421655621 . _:b421656740 . _:b421655932 "3"^^ . . _:b421656741 . _:b421656742 . _:b421656750 . . _:b421656743 . _:b421656736 . _:b421655935 "3"^^ . _:b421655636 . _:b421656737 . . _:b421656738 . _:b421656745 . _:b421655514 . _:b421656739 . _:b421656748 . _:b421655934 "3"^^ . _:b421656749 . . _:b421656750 . _:b421656744 . . _:b421656751 . _:b421656744 . _:b421655929 "3"^^ . _:b421656745 . . _:b421656746 . _:b421656747 . _:b421656747 . _:b421656756 . _:b421655928 "3"^^ . _:b421656757 . _:b421656536 . _:b421656758 . _:b421656746 . _:b421656759 . _:b421656505 . . _:b421656752 . _:b6691644 . _:b421655931 "3"^^ . _:b421656753 . _:b421656754 . _:b421656757 . . _:b421656755 . _:b421656764 . _:b421655930 "3"^^ . _:b421656765 . _:b421656766 . _:b421656756 . _:b421656767 . _:b421656760 . _:b421655941 "3"^^ . _:b421656761 . _:b421656762 . _:b421656759 . . . . _:b421655441 . _:b421656763 . _:b421656708 . _:b421655940 "3"^^ . _:b421655397 . _:b421656709 . _:b421656710 . _:b421656758 . _:b421656681 . . _:b421656711 . . _:b421656704 . _:b421655943 "3"^^ . _:b421655684 . _:b421656705 . . _:b421656706 . _:b421656753 . _:b421656707 . _:b421656716 . _:b421655942 "3"^^ . _:b421656717 . _:b421656718 . _:b421656752 . _:b421656719 . _:b421656712 . _:b421655937 "3"^^ . _:b421656713 . _:b421656594 . _:b421656714 . _:b421656755 . . _:b421656715 . _:b421656724 . _:b421655936 "3"^^ . _:b421656725 . _:b421656726 . _:b421656754 . . _:b421656727 . . _:b421655571 . _:b421656720 . _:b421655939 "3"^^ . _:b421656014 . _:b421656651 . _:b421656721 . _:b421656722 . _:b421656765 . _:b421656723 . _:b421656732 . _:b421655938 "3"^^ . _:b421655809 . _:b421656733 . _:b421656734 . _:b421656764 . _:b421656735 . _:b421656728 . _:b421655949 "3"^^ . _:b421656729 . _:b421656730 . _:b421656767 . _:b421656731 . _:b421655471 . _:b421656804 . _:b421655948 "3"^^ . _:b421656805 . _:b421656806 . _:b421656766 . . _:b421656807 . _:b421656627 . _:b421656800 . _:b421655951 "3"^^ . . _:b421656801 . _:b421656802 . _:b421656761 . _:b421656803 . _:b421656812 . _:b421655950 "3"^^ . _:b421655875 . _:b421656813 . _:b421656814 . _:b421656760 . _:b421656190 . _:b421656815 . _:b421656357 . _:b421656808 . _:b421655945 "3"^^ . _:b421656809 . _:b421656810 . _:b421656763 . _:b421656811 . _:b421656820 . _:b421655944 "3"^^ . . _:b421656821 . _:b421656822 . _:b421656762 . _:b421656823 . _:b421656816 . _:b421655947 "3"^^ . _:b421656817 . _:b421656818 . _:b421656773 . _:b421656819 . _:b421656828 . _:b421655946 "3"^^ . _:b421656829 . . . _:b421656830 . _:b421656772 . _:b421656831 . _:b421656824 . _:b421656409 . _:b421655957 "3"^^ . _:b421656825 . _:b421656826 . _:b421656775 . _:b421656827 . _:b421656772 . _:b421655956 "3"^^ . _:b421656773 . _:b421656774 . _:b421656774 . _:b421656775 . _:b421656425 . _:b421655830 . _:b421656768 . _:b421655959 "3"^^ . _:b421656769 . . _:b421656770 . _:b421656769 . _:b421656771 . _:b421656677 . _:b421656780 . _:b421655958 "3"^^ . _:b421656781 . _:b421656782 . _:b421656768 . _:b421656783 . _:b421656776 . _:b421655953 "3"^^ . . _:b421656777 . _:b421656778 . _:b421656771 . _:b421656779 . _:b421656788 . _:b421655952 "3"^^ . _:b421656789 . _:b421656782 . _:b421656361 . _:b421656790 . _:b421656770 . _:b421656791 . _:b421656784 . _:b421655955 "3"^^ . _:b421656785 . _:b421656786 . _:b421656781 . _:b421656787 . . _:b421656796 . _:b421655954 "3"^^ . _:b421656797 . _:b421656798 . _:b421656780 . _:b421656658 . _:b421656799 . _:b421656792 . _:b421655965 "3"^^ . . _:b421656793 . _:b421656794 . _:b421656783 . . _:b421656795 . _:b421655964 "3"^^ . _:b421656782 . _:b421655967 "2"^^ . . _:b421656777 . _:b421655966 "2"^^ . _:b6691609 . . _:b421656776 . _:b421655961 "3"^^ . _:b421656779 . _:b421655960 "3"^^ . _:b421656778 . _:b6691616 "Overlapping microhomologies and non-templated sequences at rearrangement junctions are often considered to be signatures of a non-homologous end-joining (NHEJ) DNA double strand break repair process>>18<<-21. The segments of overlapping microhomology are believed to mediate alignment of the two DNA fragments that are joined." . _:b421655718 . _:b421655963 "3"^^ . _:b421656194 . _:b421655380 . _:b421656789 . _:b421655962 "3"^^ . _:b421656788 . _:b421655973 "2"^^ . _:b421655837 . . _:b421656791 . _:b421656527 . _:b421655972 "2"^^ . _:b421656836 . _:b421655985 . _:b421656837 . _:b421656838 . _:b421656790 . _:b421656839 . _:b421655975 "2"^^ . _:b421656832 . _:b421656833 . . _:b421656834 . _:b421656785 . _:b421656835 . _:b421655974 "2"^^ . . _:b421656844 . _:b421656845 . _:b421656846 . _:b421656784 . _:b421656095 . _:b421656847 . _:b421655969 "2"^^ . _:b421656840 . _:b421656841 . . _:b421656842 . _:b421656787 . _:b421656843 . _:b421655968 "2"^^ . . _:b421656852 . _:b421655532 . _:b421656853 . . _:b421656854 . _:b421656786 . . _:b421656855 . _:b421655971 "2"^^ . _:b421656848 . _:b421656849 . _:b421656850 . _:b421656797 . _:b421656851 . _:b421655970 "2"^^ . _:b421656796 . _:b421656025 . _:b421655981 "2"^^ . _:b421656856 . _:b421656857 . _:b421656799 . _:b421655980 "2"^^ . . _:b421656798 . _:b421655983 "2"^^ . . _:b421656793 . _:b421655982 "2"^^ . _:b421656792 . _:b421655977 "2"^^ . _:b421656045 . _:b421655497 . . _:b421656795 . _:b421655976 "2"^^ . . . _:b421656794 . _:b421655979 "2"^^ . _:b421656805 . _:b421655978 "2"^^ . _:b421656796 . _:b421656804 . _:b421655989 "2"^^ . _:b421655734 . _:b421656807 . _:b421656586 . _:b421656466 . _:b421655332 . _:b421655988 "2"^^ . _:b421656820 . _:b421656806 . _:b421655991 "2"^^ . _:b421656801 . . _:b421656836 . _:b421655990 "2"^^ . _:b421656800 . _:b421655985 "2"^^ . . _:b421656803 . _:b421655984 "2"^^ . _:b421656802 . _:b421655987 "2"^^ . . _:b421656813 . _:b421655986 "2"^^ . _:b421656812 . _:b421655997 "2"^^ . _:b421656815 . _:b421656000 . _:b421656783 . . _:b421655996 "2"^^ . _:b421656814 . _:b421655999 "2"^^ . . _:b421656809 . _:b421655998 "2"^^ . _:b421655846 . _:b421656808 . _:b421655993 "2"^^ . . . _:b421656811 . _:b421655992 "2"^^ . _:b421656810 . _:b421655392 . _:b421655995 "2"^^ . _:b421655753 . _:b421656821 . _:b421655994 "2"^^ . _:b421656144 . _:b421656050 . _:b421656820 . . _:b421656005 "2"^^ . _:b421656517 . _:b421656823 . _:b421656004 "2"^^ . _:b421656822 . _:b421656007 "2"^^ . _:b421655331 . _:b421656817 . _:b421656006 "2"^^ . _:b421655393 . _:b421656816 . . _:b421656001 "2"^^ . _:b421656819 . _:b421656000 "2"^^ . . _:b421655770 . _:b421656665 . _:b421656818 . _:b421656003 "2"^^ . _:b421656829 . . . _:b421656002 "2"^^ . . _:b421656828 . _:b421656013 "2"^^ . . _:b421656831 . _:b421656012 "2"^^ . _:b421655432 . _:b421656830 . _:b421656015 "2"^^ . . . _:b421656825 . . _:b421656014 "2"^^ . . . _:b421655727 . _:b421656824 . _:b421656009 "2"^^ . _:b421656827 . . _:b421656008 "2"^^ . _:b421656094 . _:b421656826 . _:b421655560 . _:b421656011 "2"^^ . _:b421656624 . _:b421656010 "2"^^ . . _:b421656021 "2"^^ . _:b421655569 . _:b421656020 "2"^^ . . _:b421656757 . _:b421656023 "2"^^ . _:b421656022 "2"^^ . . . _:b421656017 "2"^^ . . _:b421656184 . _:b421656016 "2"^^ . _:b421656617 . . . . _:b421656019 "2"^^ . . . _:b421656018 "2"^^ . _:b6691609 . _:b421655841 . _:b421656029 "2"^^ . _:b421655866 . _:b421655915 . _:b421656028 "2"^^ . _:b421656031 "2"^^ . _:b6691635 "discussion" . _:b421656030 "2"^^ . _:b421656025 "2"^^ . _:b421655719 . _:b421656024 "2"^^ . _:b421656848 . _:b421656537 . _:b421656027 "2"^^ . _:b421656026 "2"^^ . _:b421655725 . _:b421656213 . . _:b421656037 "2"^^ . _:b421656036 "2"^^ . _:b421656039 "2"^^ . _:b421656038 "2"^^ . _:b421656844 . _:b421656033 "2"^^ . . _:b421656032 "2"^^ . _:b421655924 . _:b421656035 "2"^^ . _:b421656034 "2"^^ . . _:b421656045 "2"^^ . _:b421655889 . . . _:b421655440 . _:b421655310 . _:b421656044 "2"^^ . _:b421656047 "2"^^ . _:b421656435 . _:b421656046 "2"^^ . . _:b421655508 . . _:b421656041 "2"^^ . . _:b421656040 "2"^^ . _:b421656117 . . . _:b421656043 "2"^^ . _:b421656510 . _:b421656042 "2"^^ . . . _:b421656053 "2"^^ . _:b421656052 "2"^^ . . _:b421656055 "2"^^ . _:b421655782 . _:b421656054 "2"^^ . _:b421656049 "2"^^ . _:b421655868 . _:b421656048 "2"^^ . . _:b421656051 "2"^^ . _:b421656050 "2"^^ . _:b421656827 . . . _:b421656061 "2"^^ . . . _:b6691643 . _:b421656060 "2"^^ . _:b421656063 "2"^^ . . _:b421656073 . . _:b421656062 "2"^^ . _:b421656057 "2"^^ . _:b421656218 . _:b421656056 "2"^^ . _:b6691605 . _:b421656059 "2"^^ . _:b421656134 . _:b421656058 "2"^^ . _:b421656015 . . _:b421655930 . . . _:b421656001 . . . _:b421655644 . . _:b421656587 . _:b421656788 . . _:b421655612 . _:b421656672 . _:b421655804 . _:b421655993 . _:b421656592 . _:b6691634 . _:b421656760 . . . _:b421656470 . _:b421655474 . _:b6691645 "Nevertheless, as previously suggested for somatic point mutations13,14 it may be that multiple, infrequently rearranged cancer genes are operative in breast cancer as they are in leukaemia>>2<<. Furthermore, detailed analysis of rearrangement breakpoints will be necessary to investigate the possibility of fusions between promoters/regulatory elements and intact genes that result in deregulation of expression. Much larger series" . . . . _:b421655304 . _:b421655427 . . . . _:b421655309 . . _:b421655329 . _:b421655723 . . . . . . _:b421656339 . . . _:b421655400 . _:b421656593 . _:b421656722 . _:b421656801 . _:b421656186 . _:b421656247 . . . . _:b421656040 . _:b421655476 . . _:b421656714 . _:b421655446 . _:b421655333 . _:b421656479 . . _:b421656283 . _:b421656503 . . _:b421655755 . . _:b421656207 . _:b421656699 . . _:b421656633 . _:b421656038 . _:b421656271 . _:b421655311 . _:b421655515 . _:b421655697 . . . . _:b421656841 . . . _:b421655917 . _:b421655382 . _:b421656334 . _:b421656507 . . . . . . _:b421655375 . _:b421656471 . _:b421656581 "2"^^ . _:b6691606 "Activated fusion genes in common adult epithelial cancers such as those of the ETS transcription factor family in prostate cancer7 and the ALK gene in lung adenocarcinoma>>8<< were discovered only recently and not through the conventional strategy of positional cloning of cytogenetically ascertained chromosomal breakpoints." . _:b421655578 . _:b421656804 . _:b421655383 . _:b421656580 "2"^^ . _:b421656583 "2"^^ . _:b421656459 . _:b421656582 "2"^^ . . _:b421655352 . _:b421656577 "2"^^ . _:b421656444 . _:b421656101 . _:b421656576 "2"^^ . _:b421656579 "2"^^ . _:b421656578 "2"^^ . . _:b421656456 . _:b421656239 . _:b421656589 "2"^^ . . _:b421656588 "2"^^ . . . _:b421656165 . _:b421656591 "2"^^ . _:b421656590 "2"^^ . . _:b421656585 "2"^^ . _:b421656584 "2"^^ . _:b421656587 "2"^^ . _:b421655320 . . _:b421656586 "2"^^ . . _:b421656597 "2"^^ . . _:b421656596 "2"^^ . . _:b421656599 "2"^^ . _:b421655654 . _:b421655939 . . _:b6691641 . _:b421656598 "2"^^ . . . _:b421656593 "2"^^ . . _:b421656592 "2"^^ . _:b421655359 . _:b421656595 "2"^^ . . _:b421656594 "2"^^ . . _:b421655315 . _:b421656605 "2"^^ . _:b421655488 . . . _:b421655506 . _:b421656604 "2"^^ . . . _:b421656607 "2"^^ . . _:b421656606 "2"^^ . . _:b421656583 . _:b421656601 "2"^^ . _:b421656600 "2"^^ . _:b421656603 "2"^^ . . _:b421656602 "2"^^ . _:b421655421 . _:b421656237 . . _:b421655425 . _:b421656613 "2"^^ . _:b421656612 "2"^^ . . . _:b421656615 "2"^^ . _:b421656614 "2"^^ . . _:b421656609 "2"^^ . _:b421655779 . _:b421656802 . _:b421656450 . _:b421656608 "2"^^ . . _:b421656611 "2"^^ . _:b421655835 . _:b421656610 "2"^^ . _:b421656380 . . _:b421656621 "2"^^ . _:b421655594 . . . . _:b421656620 "2"^^ . _:b421655785 . _:b421656623 "2"^^ . . _:b421656622 "2"^^ . _:b421656712 . _:b421655601 . _:b421656617 "2"^^ . _:b421655619 . . . _:b421656616 "2"^^ . . _:b421656619 "2"^^ . . _:b421656618 "2"^^ . _:b421655399 . _:b421656629 "2"^^ . _:b421656628 "2"^^ . . _:b421656631 "2"^^ . _:b421656309 . _:b421656630 "2"^^ . _:b421656625 "2"^^ . _:b421655419 . . . _:b421656624 "2"^^ . _:b421656627 "2"^^ . _:b421656160 . _:b421656487 . _:b421656163 . _:b421655909 . _:b421656626 "2"^^ . . _:b421656355 . _:b421656637 "2"^^ . _:b421656021 . . _:b421656636 "2"^^ . _:b421655487 . . _:b421656639 "2"^^ . _:b421656638 "2"^^ . _:b421656004 . _:b421655610 . _:b421656633 "2"^^ . _:b421656632 "2"^^ . _:b421656635 "2"^^ . _:b421656098 . _:b421656383 . _:b421656634 "2"^^ . _:b421655627 . _:b421656645 "2"^^ . _:b421655773 . _:b421655662 . _:b421656644 "2"^^ . . . _:b421656647 "2"^^ . _:b421656046 . _:b421656646 "2"^^ . . _:b421656641 "2"^^ . _:b421655820 . _:b421656640 "2"^^ . _:b421656495 . _:b421656643 "2"^^ . . _:b421656642 "2"^^ . _:b421655479 . _:b421656653 "2"^^ . _:b421656652 "2"^^ . _:b421655922 . . . _:b421656763 . _:b421656655 "2"^^ . _:b421656353 . _:b421656654 "2"^^ . . . _:b421656625 . _:b421656037 . _:b421656649 "2"^^ . . _:b421656648 "2"^^ . _:b421656651 "2"^^ . _:b421656650 "2"^^ . _:b421656661 "2"^^ . . . _:b421655708 . _:b421656660 "2"^^ . _:b421656564 . . . _:b421656663 "2"^^ . _:b421655453 . . . _:b421656662 "2"^^ . _:b421655369 . _:b421656657 "2"^^ . . . . _:b421656656 "2"^^ . _:b421655362 . . _:b421656659 "2"^^ . . . _:b421656658 "2"^^ . _:b421655752 . . _:b421656669 "2"^^ . . . _:b421656668 "2"^^ . . . _:b421656535 . _:b421656671 "2"^^ . . _:b421656670 "2"^^ . _:b421656665 "2"^^ . . . _:b421656664 "2"^^ . _:b421655592 . . _:b421656667 "2"^^ . _:b421655961 . _:b421656200 . _:b421656666 "2"^^ . _:b421656328 . _:b421656677 "2"^^ . _:b421656733 . _:b421656676 "2"^^ . . _:b421656679 "2"^^ . . . _:b421656678 "2"^^ . _:b421656673 "2"^^ . . _:b421656672 "2"^^ . _:b421656308 . _:b421656675 "2"^^ . . _:b421656674 "2"^^ . . _:b421656685 "2"^^ . _:b421656204 . _:b421656684 "2"^^ . . . _:b421656687 "2"^^ . . . _:b421656686 "2"^^ . _:b421656681 "2"^^ . . . . _:b421655735 . _:b421656680 "2"^^ . _:b421656683 "2"^^ . . . _:b421656682 "2"^^ . _:b421656693 "2"^^ . _:b421656306 . _:b421656692 "2"^^ . _:b421655893 . . _:b421656695 "2"^^ . _:b421656694 "2"^^ . _:b421656689 "2"^^ . _:b421656136 . _:b421656688 "2"^^ . _:b421656691 "2"^^ . . _:b421656690 "2"^^ . _:b421655901 . . _:b421656701 "2"^^ . . . _:b421656700 "2"^^ . _:b421656703 "2"^^ . _:b421655538 . _:b421656574 . . _:b421656702 "2"^^ . . _:b421655378 . _:b421656697 "2"^^ . _:b421655937 . _:b421656696 "2"^^ . _:b421656699 "2"^^ . _:b421656698 "2"^^ . . _:b421656709 "2"^^ . _:b421656023 . _:b421656708 "2"^^ . _:b421656356 . _:b421656711 "2"^^ . . _:b421656710 "2"^^ . . _:b421655460 . _:b421656705 "2"^^ . _:b421655685 . _:b421656704 "2"^^ . _:b421656707 "2"^^ . _:b421656706 "2"^^ . _:b6691627 "Genomic libraries from nine breast cancer cell lines and fifteen primary breast cancers were generated using 5\u03BCg of total genomic DNA>>17<<. Briefly, 5\u03BCg of genomic DNA was randomly fragmented to between 200 and 700bp by focused acoustic shearing (Covaris Inc." . _:b421656717 "2"^^ . _:b421656716 "2"^^ . . _:b421656719 "2"^^ . _:b421656401 . _:b421655632 . _:b421656718 "2"^^ . . . _:b6691616 . _:b421656713 "2"^^ . _:b421656115 . . _:b421656712 "2"^^ . . . _:b421656715 "2"^^ . _:b421656714 "2"^^ . . . _:b421656220 . _:b421656725 "2"^^ . . . _:b421656724 "2"^^ . _:b421656799 . _:b421656727 "2"^^ . . _:b421656484 . . _:b421655999 . . _:b421656726 "2"^^ . _:b421656151 . _:b421656721 "2"^^ . . _:b421656660 . _:b421656720 "2"^^ . _:b421656065 . _:b421656171 . . _:b421656723 "2"^^ . _:b421655577 . _:b421656722 "2"^^ . . _:b421656733 "2"^^ . . . _:b421656732 "2"^^ . _:b421656297 . _:b421656735 "2"^^ . . . . _:b421656734 "2"^^ . _:b421656296 . . . _:b421656729 "2"^^ . _:b421656728 "2"^^ . . _:b421655530 . _:b421656731 "2"^^ . _:b421656230 . _:b421656730 "2"^^ . . _:b421655836 . _:b421655730 . _:b421655655 . _:b421656741 "2"^^ . . _:b421656740 "2"^^ . _:b421656501 . _:b421656743 "2"^^ . . _:b421656718 . . _:b421656742 "2"^^ . _:b421656737 "2"^^ . _:b421655763 . . _:b421656736 "2"^^ . . _:b421656739 "2"^^ . . _:b421655867 . _:b421656223 . _:b421656551 . _:b421656738 "2"^^ . _:b421656109 . . _:b421656749 "2"^^ . _:b421656748 "2"^^ . . _:b421656751 "2"^^ . _:b421656284 . _:b421656031 . _:b421656750 "2"^^ . _:b421656600 . . . _:b421655412 . _:b421656745 "2"^^ . _:b421656744 "2"^^ . _:b421656747 "2"^^ . _:b6691629 "Reads which failed to align in the expected orientation or distance apart were further evaluated using the SSAHA algorithm>>34<< to remove mapping errors in repetitive regions of the genome. In addition, during the PCR enrichment step, multiple PCR products derived from the same genomic template can occasionally be sequenced." . _:b421656746 "2"^^ . _:b421656757 "2"^^ . . _:b421656756 "2"^^ . _:b421656759 "2"^^ . _:b421656301 . _:b421656132 . _:b421656758 "2"^^ . _:b6691602 . _:b421656753 "2"^^ . . _:b421656752 "2"^^ . _:b421656123 . _:b421656755 "2"^^ . . . . _:b421656754 "2"^^ . _:b421656765 "2"^^ . . . _:b421656764 "2"^^ . . . _:b421655978 . _:b421656767 "2"^^ . _:b421656766 "2"^^ . _:b6691608 "Rearrangements also constitute a subset of mutational events that result in inactivation of recessive cancer genes (tumour suppressor genes) and underlie genomic amplifications that result in increased copy number of cancer genes>>10<<-12." . . _:b421656761 "2"^^ . . . _:b421655466 . _:b421656760 "2"^^ . . _:b421656763 "2"^^ . _:b421656762 "2"^^ . _:b421656773 "2"^^ . _:b6691601 . _:b421656772 "2"^^ . . _:b421655979 . _:b421656775 "2"^^ . _:b421656130 . _:b421656774 "2"^^ . . . . _:b421656769 "2"^^ . _:b421655307 "28"^^ . _:b421655910 . _:b421656768 "2"^^ . _:b421655306 "29"^^ . _:b421655899 . _:b421656771 "2"^^ . _:b421656770 "2"^^ . _:b421656252 . _:b421655311 "26"^^ . . _:b421656781 "2"^^ . _:b421656734 . _:b421655310 "27"^^ . _:b421656780 "2"^^ . _:b421655562 . _:b421655309 "27"^^ . _:b421656783 "2"^^ . _:b421656055 . _:b421656782 "2"^^ . _:b421655308 "28"^^ . _:b421655817 . . _:b421655314 "23"^^ . _:b421656777 "2"^^ . _:b421655315 "22"^^ . _:b421656776 "2"^^ . _:b421655313 "26"^^ . _:b421655484 . _:b421656779 "2"^^ . _:b421655312 "26"^^ . _:b421656778 "2"^^ . . _:b421656789 "2"^^ . _:b421655317 "21"^^ . _:b421655305 "30"^^ . _:b421655304 "35"^^ . _:b421656788 "2"^^ . . _:b421655316 "21"^^ . _:b421656570 . _:b421656533 . . . . _:b421655966 . _:b421656791 "2"^^ . _:b421655319 "20"^^ . . _:b421656233 . _:b421656790 "2"^^ . _:b421655318 "21"^^ . . _:b421656785 "2"^^ . _:b421655321 "19"^^ . _:b421655332 . _:b421656784 "2"^^ . _:b421655320 "20"^^ . _:b421655333 . _:b421655303 "40"^^ . _:b421655334 . _:b421655335 . _:b421655323 "19"^^ . _:b421656787 "2"^^ . _:b421655328 . _:b421655329 . _:b421655330 . _:b421655331 . _:b421655322 "19"^^ . _:b421656786 "2"^^ . _:b421655716 . _:b421655340 . _:b421655341 . _:b421655342 . _:b421655325 "18"^^ . . _:b421655343 . . _:b421656797 "2"^^ . _:b421656541 . _:b421655336 . _:b421655337 . _:b421655338 . _:b421655339 . _:b421655324 "19"^^ . _:b421656796 "2"^^ . _:b421655348 . _:b421655349 . _:b421655350 . _:b421655327 "18"^^ . _:b421655351 . _:b421655302 "47"^^ . _:b421656799 "2"^^ . _:b421655344 . _:b421655345 . _:b421655346 . _:b421655326 "18"^^ . _:b421655347 . _:b421655356 . _:b421656798 "2"^^ . . _:b421656656 . _:b421655357 . _:b421655358 . _:b421655359 . _:b421656205 . _:b421655352 . _:b421656793 "2"^^ . _:b421655353 . _:b421655354 . _:b421655328 "18"^^ . _:b421656030 . _:b421655355 . _:b421656792 "2"^^ . _:b421655329 "17"^^ . _:b421655492 . _:b421655302 . _:b421655303 . _:b421656509 . _:b421656795 "2"^^ . _:b421655330 "17"^^ . _:b421655308 . _:b421656794 "2"^^ . _:b421655309 . _:b421655331 "17"^^ . _:b421655310 . _:b421655311 . _:b421655304 . _:b421656805 "2"^^ . _:b421655332 "16"^^ . _:b421655305 . _:b421655306 . _:b421655307 . _:b421655316 . _:b421656804 "2"^^ . _:b421655333 "16"^^ . _:b421655317 . _:b421655318 . _:b421655319 . . _:b421656807 "2"^^ . _:b421655312 . _:b421655334 "16"^^ . _:b421655313 . _:b421655314 . _:b421655315 . _:b421655335 "15"^^ . _:b421656806 "2"^^ . . _:b421655324 . _:b421655325 . _:b421655326 . _:b421655327 . _:b421655336 "15"^^ . _:b421656801 "2"^^ . _:b421655320 . _:b421655321 . _:b421655343 "13"^^ . _:b421655322 . _:b421655323 . _:b421655337 "15"^^ . _:b421656800 "2"^^ . _:b421655396 . _:b421655397 . _:b421655398 . _:b421655399 . _:b421655338 "15"^^ . _:b421656803 "2"^^ . _:b421655392 . _:b421655393 . _:b421655394 . _:b421655339 "14"^^ . _:b421655395 . _:b421655404 . _:b421656802 "2"^^ . . _:b421655405 . _:b421655406 . _:b421656268 . _:b421655340 "14"^^ . _:b421655407 . _:b421655400 . _:b421656813 "2"^^ . _:b421655401 . _:b421655402 . _:b421655611 . _:b421655341 "14"^^ . . _:b421655403 . _:b421655412 . _:b421656812 "2"^^ . _:b421655413 . _:b421655414 . _:b421655342 "14"^^ . _:b421655415 . _:b421655408 . _:b421656815 "2"^^ . _:b421655641 . _:b421655409 . _:b421655410 . _:b421655411 . _:b421655420 . _:b421656814 "2"^^ . _:b421655421 . _:b421655422 . _:b421655423 . _:b421655416 . _:b421656809 "2"^^ . _:b421655351 "12"^^ . _:b421655417 . _:b421655418 . _:b421656141 . _:b421655419 . _:b421655364 . _:b421656808 "2"^^ . _:b421656678 . _:b421655350 "12"^^ . _:b421655365 . _:b421655366 . _:b421656811 . _:b421655367 . _:b421655360 . _:b421656811 "2"^^ . _:b421655349 "12"^^ . _:b421655361 . _:b421655362 . _:b421655363 . _:b421655372 . _:b421656810 "2"^^ . _:b421655348 "12"^^ . _:b421655373 . _:b421655863 . _:b421655374 . _:b421655375 . _:b421655368 . _:b421656821 "2"^^ . . _:b421655347 "12"^^ . _:b421655369 . _:b421655370 . . _:b421655371 . _:b421655380 . _:b421656820 "2"^^ . _:b421655381 . _:b421655346 "13"^^ . _:b421655382 . _:b421655383 . . . _:b421656823 "2"^^ . _:b421655376 . _:b421655377 . _:b421655345 "13"^^ . _:b421655378 . _:b421655379 . _:b421655388 . _:b421656822 "2"^^ . _:b421655389 . _:b421655344 "13"^^ . _:b421655390 . _:b421655767 . _:b421655391 . _:b421655359 "11"^^ . _:b421656817 "2"^^ . _:b421655384 . _:b421655385 . _:b421655575 . _:b421655386 . _:b421655387 . _:b421655777 . _:b421656816 "2"^^ . _:b421655460 . _:b421655358 "11"^^ . . _:b421655461 . . _:b421655462 . _:b421655463 . _:b421655357 "11"^^ . _:b421656819 "2"^^ . _:b421655456 . _:b421655457 . _:b421655458 . _:b421655459 . _:b421655356 "11"^^ . _:b421656818 "2"^^ . _:b421656246 . . _:b421655468 . _:b421655469 . _:b421655470 . . . _:b421655471 . _:b421655355 "11"^^ . _:b421656829 "2"^^ . _:b421655464 . _:b421655364 . _:b421655671 . _:b421655465 . _:b421655466 . _:b421655467 . _:b421655354 "11"^^ . _:b421656828 "2"^^ . _:b421655476 . _:b421655477 . . _:b421655478 . _:b421655479 . . _:b421655472 . _:b421656831 "2"^^ . . _:b421655888 . _:b421655353 "12"^^ . _:b421655473 . _:b421655474 . _:b421655475 . _:b421655707 . _:b421656830 "2"^^ . _:b421655484 . _:b421655352 "12"^^ . _:b421655485 . _:b421655486 . _:b421655367 "10"^^ . _:b421655487 . _:b421655480 . _:b421656825 "2"^^ . _:b421655481 . _:b421655482 . _:b421655366 "10"^^ . _:b421655483 . _:b421655428 . _:b421656824 "2"^^ . _:b421655429 . . _:b421655430 . . _:b421655431 . _:b421655365 "10"^^ . _:b421655424 . _:b421656827 "2"^^ . _:b421655425 . _:b421655426 . _:b421655486 . _:b421655427 . _:b421655364 "10"^^ . _:b421655436 . _:b421656826 "2"^^ . . _:b421655437 . _:b421655438 . _:b421655363 "10"^^ . . _:b421655439 . _:b421655432 . _:b421656837 "2"^^ . . _:b421655433 . _:b421655434 . . _:b421655362 "10"^^ . _:b421655435 . _:b421655444 . _:b421656836 "2"^^ . _:b421655445 . _:b421655446 . _:b421655361 "10"^^ . _:b421655447 . _:b421655440 . _:b421656839 "2"^^ . _:b421655441 . _:b421655442 . _:b421655443 . _:b421655360 "11"^^ . _:b421656838 "2"^^ . _:b421655452 . _:b421655453 . _:b421655454 . _:b421655375 "10"^^ . _:b421656394 . _:b421655455 . _:b421655448 . _:b421656833 "2"^^ . _:b421655449 . _:b421655450 . _:b421655374 "10"^^ . _:b421655430 . _:b421655451 . _:b421655524 . _:b421656832 "2"^^ . _:b421655525 . _:b421655526 . . _:b421655527 . _:b421655373 "10"^^ . _:b421655520 . _:b421656835 "2"^^ . _:b421656232 . _:b421655521 . _:b421655522 . _:b421655372 "10"^^ . _:b421656475 . . _:b421655523 . _:b421655532 . _:b421656834 "2"^^ . _:b421655533 . _:b421655534 . _:b421655371 "10"^^ . _:b421655535 . _:b421655528 . _:b421656845 "2"^^ . . _:b421655529 . _:b421655530 . _:b421655370 "10"^^ . _:b421655531 . . _:b421655540 . _:b421656844 "2"^^ . _:b421655541 . _:b421655542 . _:b421655369 "10"^^ . _:b421655543 . _:b421655343 . _:b421656847 "2"^^ . _:b421655536 . _:b421655537 . _:b421655538 . _:b421655368 "10"^^ . _:b421655539 . _:b421655548 . _:b421656846 "2"^^ . _:b421655549 . _:b421655550 . _:b421655551 . _:b421655544 . _:b421656841 "2"^^ . _:b421655545 . . _:b421655546 . _:b421655382 "10"^^ . _:b421655547 . _:b421655492 . _:b421656840 "2"^^ . . _:b421655493 . _:b421655383 "9"^^ . _:b421655494 . _:b421655381 "10"^^ . _:b421655495 . _:b421655488 . _:b421656843 "2"^^ . _:b421655886 . _:b421655489 . _:b421655490 . _:b421656751 . _:b421655380 "10"^^ . _:b421655491 . _:b421655500 . _:b421656842 "2"^^ . _:b421655717 . _:b421655501 . _:b421655502 . _:b421656853 . _:b421655379 "10"^^ . _:b421655503 . _:b421655496 . _:b421656853 "2"^^ . _:b421655497 . _:b421655498 . _:b421655378 "10"^^ . _:b421655499 . _:b421655508 . _:b421656852 "2"^^ . _:b421655509 . _:b421656433 . _:b421655510 . _:b421655377 "10"^^ . _:b421655511 . _:b421655504 . _:b421656855 "2"^^ . . _:b421655505 . _:b421655506 . _:b421655376 "10"^^ . _:b6691600 . _:b421656366 . _:b421655507 . _:b421655516 . _:b421656854 "2"^^ . _:b421655517 . _:b421655518 . . _:b421655519 . _:b6691601 . _:b421655512 . _:b421656849 "2"^^ . _:b421655513 . _:b421655390 "9"^^ . _:b421655514 . _:b421655515 . _:b421656848 "2"^^ . _:b421655391 "9"^^ . _:b421656716 . _:b421656851 "2"^^ . _:b421655388 "9"^^ . _:b421656850 "2"^^ . _:b421655485 . _:b421655389 "9"^^ . _:b421656572 . _:b421655386 "9"^^ . . _:b421655387 "9"^^ . . _:b421655384 "9"^^ . _:b421655385 "9"^^ . _:b421656575 . _:b421656857 "2"^^ . _:b421656419 . _:b421655398 "9"^^ . _:b421656856 "2"^^ . . _:b421655399 "9"^^ . _:b421655396 "9"^^ . _:b421655968 . _:b421655397 "9"^^ . _:b421656137 . _:b421655394 "9"^^ . . . _:b421655395 "9"^^ . . _:b421655392 "9"^^ . _:b421655393 "9"^^ . _:b421655406 "8"^^ . _:b421655407 "8"^^ . . _:b421655642 . _:b421655404 "8"^^ . . _:b421655405 "8"^^ . _:b421656106 . _:b421655402 "8"^^ . _:b421655403 "8"^^ . . _:b421655400 "9"^^ . _:b421655848 . _:b421655401 "9"^^ . _:b421655414 "8"^^ . _:b421655353 . _:b421655415 "8"^^ . . . _:b421655412 "8"^^ . . . _:b421655413 "8"^^ . _:b421655410 "8"^^ . _:b421655411 "8"^^ . _:b421655408 "8"^^ . _:b6691636 "Tandem duplications appear to be the most common subclass and are known to form activated cancer genes in other cancer types>>26<<27. The high prevalence of tandem duplications in a subset of cancers suggests the presence of a defect in DNA maintenance which generates this particular class of rearrangement. The underlying abnormality responsible for this phenotype is" . . _:b421655890 . _:b421655409 "8"^^ . _:b421655828 . _:b421655422 "8"^^ . . _:b421655423 "8"^^ . _:b421655843 . _:b421655420 "8"^^ . _:b421656538 . _:b421655421 "8"^^ . _:b421655524 . _:b6691645 . . _:b421655418 "8"^^ . _:b421656235 . _:b421655419 "8"^^ . _:b421655416 "8"^^ . _:b421655958 . _:b421655852 . _:b421655417 "8"^^ . _:b421655430 "7"^^ . . _:b421655431 "7"^^ . _:b421655844 . _:b421656621 . _:b421655669 . _:b421656824 . _:b421655428 "8"^^ . . _:b421655429 "8"^^ . _:b421655426 "8"^^ . . . _:b421655427 "8"^^ . _:b421655424 "8"^^ . . _:b421655704 . _:b421655904 . . _:b421655425 "8"^^ . . _:b421655438 "7"^^ . . _:b421656781 . _:b421655439 "7"^^ . . _:b421655436 "7"^^ . . _:b421655437 "7"^^ . . _:b421655434 "7"^^ . _:b421655435 "7"^^ . _:b421655432 "7"^^ . . _:b421656457 . _:b421655433 "7"^^ . _:b421656708 . _:b421655446 "7"^^ . _:b421655447 "7"^^ . . _:b421655444 "7"^^ . _:b421655445 "7"^^ . . _:b421655442 "7"^^ . _:b421655443 "7"^^ . . _:b421656805 . _:b421655344 . _:b421655440 "7"^^ . _:b421655441 "7"^^ . _:b421655454 "6"^^ . _:b421656389 . _:b421655455 "6"^^ . _:b421655452 "6"^^ . _:b421655522 . _:b421655539 . _:b421655453 "6"^^ . _:b421655450 "7"^^ . _:b421656462 . . _:b421655451 "6"^^ . . _:b421655448 "7"^^ . . _:b421655819 . _:b421655449 "7"^^ . _:b421655462 "6"^^ . _:b421655788 . _:b421655463 "6"^^ . . _:b421655460 "6"^^ . . _:b421655461 "6"^^ . . _:b421656500 . _:b421655859 . _:b421655458 "6"^^ . _:b421655459 "6"^^ . _:b421655456 "6"^^ . _:b421655449 . _:b421656837 . _:b421655457 "6"^^ . _:b421656773 . _:b421655470 "6"^^ . _:b421655471 "6"^^ . _:b421655468 "6"^^ . . _:b421655613 . . _:b421655469 "6"^^ . . . _:b421655466 "6"^^ . _:b421656724 . _:b421655467 "6"^^ . _:b421655413 . . _:b421655464 "6"^^ . . _:b421655465 "6"^^ . . . . _:b421655478 "6"^^ . _:b421655479 "6"^^ . . . _:b421655476 "6"^^ . . _:b421655477 "6"^^ . . _:b421655474 "6"^^ . _:b421656028 . . _:b421655475 "6"^^ . . _:b421655472 "6"^^ . _:b421656654 . _:b421655473 "6"^^ . . _:b421656560 . _:b421655486 "6"^^ . _:b421655415 . . . _:b421655487 "6"^^ . _:b421655931 . _:b421655807 . _:b6691609 "the diversity of prevalence and pattern of point mutations and copy number changes in cancer genomes have been elucidated by systematic PCR-based resequencing studies and by application of high resolution copy number arrays respectively>>13<<-16. Understanding of the basic patterns of rearrangement in most cancers, however, remains rudimentary." . _:b421655484 "6"^^ . _:b421655485 "6"^^ . . _:b421655482 "6"^^ . _:b421655483 "6"^^ . _:b421656849 . . . . _:b421655854 . _:b421655480 "6"^^ . _:b421655481 "6"^^ . _:b421655494 "6"^^ . . . _:b421655495 "6"^^ . _:b421655492 "6"^^ . _:b421655493 "6"^^ . _:b421655490 "6"^^ . _:b421655491 "6"^^ . _:b421655488 "6"^^ . . _:b421655489 "6"^^ . _:b421655394 . _:b421655501 "5"^^ . _:b421655768 . _:b421655500 "5"^^ . _:b421655503 "5"^^ . _:b421655389 . _:b421656320 . _:b421655798 . _:b421655806 . _:b421655502 "5"^^ . . _:b6691628 "These were aligned to the human genome (NCBI build 36.2) using the MAQ algorithm v0.4.>>333<<." . _:b421655497 "5"^^ . _:b421655617 . . . . _:b421656661 . . _:b421655496 "6"^^ . _:b421655849 . _:b421655499 "5"^^ . . . . _:b421655498 "5"^^ . . _:b421655509 "5"^^ . _:b421655508 "5"^^ . _:b421655326 . . . _:b421655511 "5"^^ . _:b421656016 . . _:b421655510 "5"^^ . . _:b421655505 "5"^^ . _:b421655504 "5"^^ . . . _:b421655507 "5"^^ . _:b421655506 "5"^^ . . . . _:b421655517 "5"^^ . . _:b421656100 . _:b421656101 . _:b421655516 "5"^^ . _:b421656102 . _:b421656103 . . _:b421656096 . _:b421656097 . _:b421655519 "5"^^ . _:b421656603 . _:b421656098 . _:b421655305 . _:b421656099 . _:b421656108 . _:b421656109 . _:b421655518 "5"^^ . . _:b421656110 . _:b421656111 . _:b421656104 . . _:b421656105 . _:b421655513 "5"^^ . _:b421656351 . _:b421656106 . . _:b421656107 . _:b421656116 . _:b421656117 . _:b421655512 "5"^^ . _:b421656118 . _:b421656119 . _:b421656112 . _:b421656113 . _:b421655303 . _:b421656114 . _:b421655515 "5"^^ . _:b421656115 . _:b421656124 . . . _:b421656125 . _:b421655514 "5"^^ . _:b421656126 . _:b421656127 . _:b421656120 . . _:b421656121 . _:b421655525 "5"^^ . _:b421656122 . _:b421656123 . _:b421656068 . _:b421656069 . _:b421655524 "5"^^ . _:b421656070 . _:b421656071 . _:b421656064 . . _:b421656065 . . _:b421655527 "5"^^ . _:b421656066 . _:b421656067 . _:b421656076 . _:b421656077 . _:b421655526 "5"^^ . . _:b421656078 . _:b421656079 . _:b421656072 . _:b421656073 . _:b421655521 "5"^^ . _:b421656074 . _:b421656075 . _:b421656084 . _:b421656388 . _:b421656067 . _:b421656085 . . _:b421656086 . _:b421655520 "5"^^ . _:b421655726 . . _:b421656087 . _:b421656080 . _:b421656081 . _:b421655523 "5"^^ . _:b421656082 . _:b421656083 . _:b421655319 . _:b421656092 . _:b421656093 . _:b421655522 "5"^^ . _:b421656094 . _:b421656095 . _:b421655405 . _:b421656088 . _:b421656489 . _:b421655597 . _:b421656089 . _:b421655533 "5"^^ . _:b421656449 . _:b421656090 . _:b421656181 . _:b421656091 . _:b421656164 . _:b421656254 . _:b421656167 . _:b421656165 . _:b421655532 "5"^^ . _:b421656166 . _:b421656167 . _:b6691612 "By contrast, in others they cluster in and connect genomic regions showing amplification. The rearrangement architecture in such amplicons is often highly complex>>10<<,11." . _:b6691635 _:b6691640 . _:b421656160 . _:b6691635 _:b6691641 . _:b421656161 . _:b6691635 _:b6691642 . _:b421656451 . _:b421656162 . _:b421655535 "5"^^ . _:b6691635 _:b6691643 . _:b421656163 . . _:b421656172 . _:b6691635 _:b6691644 . _:b6691635 _:b6691645 . _:b421656173 . _:b421655534 "5"^^ . _:b421656174 . _:b421656175 . _:b421656168 . . _:b421656169 . _:b421655529 "5"^^ . _:b421656170 . _:b421656171 . _:b6691623 . _:b6691635 _:b6691636 . _:b421656180 . _:b6691635 _:b6691637 . _:b421656181 . _:b6691635 _:b6691638 . _:b421656182 . . _:b421655528 "5"^^ . _:b6691635 _:b6691639 . _:b421656183 . _:b421656176 . _:b421655356 . _:b421656177 . _:b421655531 "5"^^ . _:b421656178 . _:b421656179 . _:b421656188 . _:b421656189 . _:b421655530 "5"^^ . _:b421656190 . _:b421656191 . _:b421656382 . _:b421655756 . _:b421656184 . _:b6691626 "methods" . _:b421656185 . _:b421655541 "5"^^ . _:b421656186 . _:b421656187 . _:b421656132 . _:b421656133 . _:b421655540 "5"^^ . _:b421656134 . . . _:b421656135 . _:b421656128 . _:b421656129 . _:b421655543 "5"^^ . _:b421656130 . _:b421656007 . _:b421656131 . _:b421656140 . _:b421656141 . _:b421655542 "5"^^ . _:b421656142 . _:b421656143 . _:b421655808 . _:b421656136 . _:b421656137 . _:b421655537 "5"^^ . _:b421656138 . _:b421656139 . . _:b421656148 . . _:b421656149 . _:b421655536 "5"^^ . _:b421656150 . _:b421656151 . _:b421656144 . _:b421656145 . _:b421655539 "5"^^ . _:b421656146 . _:b421656072 . _:b421655891 . _:b421656147 . _:b421656156 . _:b421656157 . _:b421655538 "5"^^ . . _:b421656158 . _:b421656159 . _:b421656152 . _:b421656153 . _:b421655549 "5"^^ . _:b421656154 . . _:b421656630 . _:b421656155 . _:b421656228 . _:b421656229 . . _:b421655548 "5"^^ . _:b421656580 . _:b421656230 . . _:b421656231 . _:b421656224 . _:b421655551 "4"^^ . _:b421656225 . _:b421656226 . _:b421656227 . _:b421656236 . . _:b421656237 . _:b421655550 "4"^^ . _:b421656238 . _:b421656169 . _:b421655365 . _:b421656239 . _:b421656232 . _:b421656233 . _:b421655545 "5"^^ . _:b421656234 . . _:b421656235 . _:b421656244 . _:b421656789 . _:b421656540 . _:b421656245 . _:b421655544 "5"^^ . _:b421656246 . _:b421655357 . _:b421656247 . _:b6691626 _:b6691628 . _:b421656240 . _:b6691626 _:b6691629 . _:b421656241 . _:b6691626 _:b6691630 . _:b421656242 . . _:b421655547 "5"^^ . _:b6691626 _:b6691631 . _:b421656243 . _:b421656252 . _:b421656260 . _:b421656253 . _:b421655546 "5"^^ . _:b421656254 . _:b6691626 _:b6691627 . _:b421656255 . _:b421656248 . _:b421656249 . _:b421656250 . . _:b421656251 . _:b421655840 . _:b421656196 . _:b421656197 . _:b421656198 . _:b421655695 . _:b421656199 . _:b421656192 . _:b421656193 . _:b421655827 . _:b421656194 . _:b421656195 . _:b421656204 . _:b421656205 . _:b421656206 . _:b421656207 . _:b421656200 . . . _:b421656201 . _:b421656041 . _:b421656202 . _:b421656203 . _:b6691626 _:b6691632 . _:b421656212 . _:b6691626 _:b6691633 . . _:b421656213 . _:b421655544 . _:b6691626 _:b6691634 . _:b421656214 . _:b421656215 . _:b421656208 . _:b421656209 . _:b421656210 . _:b421656211 . _:b421656220 . _:b421656221 . _:b421656222 . _:b421656223 . _:b421656216 . _:b421656217 . _:b421656218 . _:b421656219 . _:b421656292 . . _:b421656293 . . _:b421656294 . _:b421656295 . _:b421656288 . _:b421656289 . _:b421656415 . _:b421656402 . _:b421656290 . _:b421656291 . _:b6691611 _:b6691612 . _:b421656300 . . _:b6691611 _:b6691613 . _:b421655951 . _:b421656301 . _:b6691611 _:b6691614 . _:b421656302 . _:b6691611 _:b6691615 . _:b421656303 . _:b421656296 . _:b421656297 . _:b421656298 . _:b421656299 . _:b421656308 . _:b421656309 . _:b421656310 . _:b421656311 . _:b6691611 _:b6691624 . _:b421656304 . . _:b421656305 . _:b6691611 _:b6691625 . . _:b421656306 . _:b421656307 . _:b421656316 . _:b421656317 . _:b421656318 . _:b421656319 . _:b6691611 _:b6691616 . _:b421656312 . _:b6691611 _:b6691617 . _:b421656313 . _:b6691611 _:b6691618 . _:b421656314 . _:b6691611 _:b6691619 . _:b421656315 . _:b6691611 _:b6691620 . _:b421656260 . . _:b6691611 _:b6691621 . _:b421656261 . _:b6691611 _:b6691622 . _:b421656262 . _:b6691611 _:b6691623 . _:b421656263 . _:b421656256 . . _:b421656257 . _:b421655998 . _:b421656258 . _:b421656259 . _:b421656268 . _:b421656269 . _:b421656270 . _:b421655666 . _:b421656271 . _:b421656597 . . _:b421656264 . _:b421656265 . _:b421656753 . _:b421656266 . _:b421656267 . . _:b421656276 . _:b421656277 . _:b421656278 . _:b421656279 . _:b6691599 _:b6691608 . _:b421656272 . _:b6691599 _:b6691609 . _:b421656273 . _:b6691599 _:b6691610 . _:b421656274 . _:b421656275 . _:b421656284 . _:b421656285 . _:b421656286 . _:b421656287 . _:b6691599 _:b6691600 . _:b421656280 . _:b6691599 _:b6691601 . _:b421656281 . _:b6691599 _:b6691602 . _:b421656282 . _:b6691599 _:b6691603 . _:b421655722 . _:b421656283 . _:b421655781 . _:b6691599 _:b6691604 . _:b421656356 . _:b6691599 _:b6691605 . _:b421656357 . _:b6691599 _:b6691606 . _:b421656358 . _:b6691599 _:b6691607 . _:b421656359 . _:b421656352 . _:b421655407 . _:b421656353 . _:b421655395 . _:b421656360 . _:b421656354 . _:b421656355 . _:b421656364 . _:b421656365 . _:b421656366 . _:b421656826 . _:b421656367 . _:b421656360 . _:b421656361 . _:b421656362 . . _:b421656363 . . _:b421656372 . _:b421656373 . _:b421656374 . _:b421656375 . _:b421656368 . _:b421656369 . _:b421656370 . _:b421656371 . _:b421656142 . _:b421656380 . _:b421656381 . _:b421656382 . _:b421655631 . _:b421656383 . _:b421656376 . _:b421656377 . _:b421656378 . _:b421656379 . _:b421656324 . _:b421655865 . _:b421656325 . _:b421656326 . _:b421656327 . _:b421656320 . _:b421656321 . _:b6691617 "It has, however, recently been proposed that complex germline rearrangements with genomic shards and overlapping microhomology might be due to replicative mechanisms>>21<<. The small proportion of complex rearrangements with genomic shards may indicate that this mechanism is relatively infrequently operative in breast cancer." . _:b421656322 . _:b421656323 . _:b421656332 . _:b421656333 . _:b421656334 . _:b421656335 . _:b421656328 . _:b421656329 . _:b421656330 . _:b421656331 . _:b421656227 . _:b421656340 . _:b421656341 . _:b421656342 . _:b421656343 . _:b421656336 . _:b421656337 . _:b421656338 . . _:b421656339 . _:b421656348 . _:b421656349 . _:b421656350 . _:b421656351 . _:b421656344 . . _:b421656345 . _:b421656346 . . _:b421656347 . _:b421656420 . _:b421656421 . _:b421656422 . _:b421656423 . _:b421656416 . _:b421656417 . . _:b421656418 . . _:b421656166 . _:b421656419 . _:b421656428 . _:b421656429 . . _:b421656070 . . _:b421656491 . _:b421656430 . _:b421656431 . _:b421656424 . _:b421656425 . _:b421656426 . _:b421656427 . _:b421656436 . _:b421656437 . _:b421656438 . _:b421656439 . _:b421655663 . _:b421656432 . _:b421656433 . _:b421656434 . _:b421656435 . _:b421656444 . _:b421656445 . . _:b421656446 . _:b421656447 . _:b421655885 . _:b421656440 . _:b421655960 . _:b421656441 . _:b421656442 . _:b421656443 . _:b421656388 . _:b421656389 . _:b421656390 . _:b421656391 . _:b421656384 . _:b421656385 . _:b421655832 . _:b421656386 . _:b421656387 . _:b421656097 . _:b421656396 . _:b421656397 . _:b421656398 . _:b421656399 . . _:b421656392 . _:b421656393 . . . _:b421656394 . _:b421656395 . _:b421656404 . _:b421656405 . _:b421656086 . _:b421656406 . _:b421656407 . _:b421656400 . _:b421656401 . . _:b421656402 . _:b421656403 . _:b421656412 . _:b421656413 . . _:b421656414 . _:b421656415 . _:b421656408 . _:b421656409 . . _:b421656410 . _:b421656411 . _:b421656484 . _:b421656485 . _:b421656486 . _:b421656487 . _:b421655872 . _:b421656480 . _:b421656481 . _:b421656372 . _:b421656482 . _:b421656483 . . _:b421656492 . . . _:b421656493 . _:b421656494 . . _:b421656495 . _:b421656488 . _:b421656489 . _:b421656490 . _:b421656491 . _:b421656500 . _:b421656501 . _:b421656502 . . _:b421656503 . _:b421656496 . _:b421656497 . _:b421656498 . _:b421656499 . _:b421655606 . _:b421656508 . _:b421656509 . _:b421656510 . _:b421656511 . _:b421656504 . _:b421656505 . _:b421656506 . _:b421656507 . _:b421656452 . _:b421656453 . _:b421656454 . _:b421656455 . _:b421656448 . _:b421656449 . _:b421656450 . _:b421656451 . _:b421656460 . _:b421656461 . _:b421656462 . _:b421656463 . _:b421656456 . _:b421655546 . _:b421656457 . _:b421656458 . _:b421656459 . _:b421656468 . _:b421656469 . _:b421656470 . _:b421656471 . _:b421656464 . _:b421656614 . _:b421656465 . _:b421656466 . _:b421656467 . _:b421656476 . . . _:b421656477 . _:b421656478 . _:b421656479 . _:b421656472 . _:b421656473 . _:b421656474 . _:b421656475 . _:b421656548 . _:b421656549 . _:b421656550 . _:b421656551 . _:b421656544 . _:b421656545 . _:b421656546 . _:b421656547 . _:b421656262 . _:b421656556 . _:b421656557 . _:b421656784 . _:b421656558 . _:b421656559 . _:b421656552 . _:b421656553 . _:b421655682 . _:b421656554 . _:b421656555 . . _:b421656564 . _:b421656565 . . _:b421656566 . . _:b421656567 . _:b421656560 . . _:b421656561 . . _:b421656562 . _:b421656563 . _:b421656178 . . _:b421656572 . _:b421656573 . _:b421656574 . _:b421656575 . _:b421656568 . _:b421656482 . _:b421656569 . _:b421656570 . _:b421656571 . _:b421656516 . _:b421656517 . . _:b421656752 . _:b421656518 . _:b421656519 . _:b421656280 . . _:b421656512 . _:b421656513 . _:b421656514 . _:b421656515 . _:b421656524 . _:b421656525 . _:b421656526 . . _:b421656527 . _:b421656520 . _:b421656521 . _:b421656522 . _:b421656523 . _:b421656532 . _:b421656533 . _:b421656534 . _:b421656535 . _:b421656528 . _:b421656529 . _:b421656530 . _:b421656531 . _:b421656540 . _:b421656541 . _:b421656542 . _:b421656543 . _:b421656168 . _:b421656146 . _:b421656536 . _:b421656537 . _:b421656538 . _:b421656539 . _:b421655588 . . _:b421655589 . _:b421655590 . _:b421655591 . _:b421656185 . _:b421655584 . _:b421655585 . _:b421655742 . _:b421656124 . _:b421655586 . _:b421655587 . _:b421655367 . _:b421655596 . _:b421655597 . _:b421655598 . _:b421656497 . _:b421655778 . . _:b421655599 . _:b421655592 . _:b421655593 . _:b421655594 . _:b421655595 . _:b421655604 . _:b421655605 . _:b421655606 . _:b421655607 . _:b421655600 . _:b421655601 . _:b421655602 . . _:b421655603 . _:b421655612 . _:b421656608 . _:b421655613 . . _:b421655614 . _:b421655615 . _:b421656343 . . _:b421655608 . _:b421655609 . _:b421655610 . _:b421655611 . _:b421655556 . _:b421655557 . _:b421655558 . _:b421655559 . . _:b421655552 . _:b421655553 . _:b421655554 . _:b421655555 . _:b421656387 . . _:b421655564 . _:b421655680 . _:b421655565 . _:b421656544 . _:b421655566 . _:b421655567 . _:b421655520 . _:b421655560 . _:b421655561 . _:b421655562 . _:b421655563 . _:b421655572 . _:b421655573 . _:b421655618 . _:b421655574 . _:b421655692 . _:b421656810 . _:b421655575 . _:b421655568 . . . . _:b421655569 . _:b421655570 . _:b421655571 . _:b421655580 . _:b421656554 . . . _:b421655581 . _:b421655582 . _:b421656203 . _:b421655661 . _:b421655583 . _:b421655576 . _:b421655577 . _:b421655578 . _:b421655579 . _:b421656735 . _:b421656272 . _:b421655652 . _:b421655653 . _:b421655654 . _:b421655655 . _:b421655648 . _:b421656215 . . _:b421655649 . _:b421655650 . _:b421655651 . _:b421655660 . _:b421655372 . _:b421655661 . _:b421655662 . _:b421655663 . _:b421655656 . . _:b421655657 . _:b421656322 . _:b421655658 . . _:b421655659 . _:b421655668 . _:b421655995 . _:b421655669 . . _:b421655670 . _:b421655547 . _:b421655871 . _:b421655671 . _:b421655664 . _:b421656814 . . _:b421655665 . _:b421655666 . _:b421656579 . . _:b421655667 . _:b421655676 . _:b421655677 . . _:b421656508 . _:b421655678 . . _:b421655679 . _:b421655672 . _:b421655673 . _:b421655674 . _:b421655675 . _:b421655620 . _:b421655621 . . _:b421655622 . _:b421655623 . _:b421655616 . _:b421655617 . _:b421655618 . _:b421655619 . _:b421655628 . . _:b421655864 . _:b421655629 . _:b421655398 . . . _:b421655630 . _:b421655631 . _:b421656746 . . _:b421655624 . _:b421655625 . _:b421655626 . _:b421655627 . _:b421655636 . _:b421655637 . _:b421656685 . _:b421655638 . _:b421655639 . _:b421655632 . . _:b421655633 . _:b421655634 . _:b421655635 . _:b421655644 . _:b421655645 . _:b421655416 . _:b421655646 . _:b421655647 . _:b421655640 . _:b421655641 . . _:b421655642 . _:b421655643 . _:b421655716 . . _:b421655717 . _:b421655718 . _:b421655719 . _:b421656602 . _:b421655712 . _:b421656076 . _:b421655713 . _:b421655351 . _:b421655714 . _:b421655715 . _:b421655724 . _:b421655725 . _:b421655726 . . _:b421655727 . _:b421655720 . _:b421655721 . _:b421655722 . . _:b421655723 . _:b421655732 . _:b421655733 . _:b421655734 . _:b421655735 . _:b421655728 . _:b421655729 . _:b421656248 . _:b421655794 . _:b421655730 . _:b421655731 . _:b421655740 . _:b421655607 . _:b421655741 . _:b421655742 . _:b421655743 . _:b421655736 . _:b421655737 . . _:b421656719 . _:b421655738 . _:b421655739 . _:b421655684 . _:b421655685 . _:b421655686 . . _:b421655687 . _:b421655363 . _:b421655680 . _:b421655681 . _:b421655682 . _:b421655683 . _:b421655692 . _:b421655693 . _:b421655694 . _:b421655695 . _:b421655688 . _:b421656791 . _:b421656499 . _:b421655689 . _:b421655690 . _:b421655691 . _:b421655700 . _:b421655701 . _:b421655702 . . _:b421655703 . _:b421655696 . _:b421655408 . _:b421655697 . _:b421655698 . _:b421655699 . _:b421655708 . _:b421655709 . _:b421655710 . _:b421655711 . _:b421655704 . _:b421655705 . _:b421655706 . _:b421655707 . _:b421655780 . _:b421655781 . . _:b421655782 . _:b421655783 . _:b421655776 . _:b421655777 . _:b421655994 . _:b421655778 . _:b421655779 . _:b421655788 . _:b421655789 . _:b421655790 . _:b421655791 . _:b421656642 . _:b421655784 . _:b421655785 . _:b421656803 . _:b421655786 . _:b421655787 . _:b421655862 . _:b421655796 . _:b421655797 . _:b421655798 . _:b421655799 . _:b421655792 . _:b421655793 . _:b421655794 . _:b421655795 . _:b421656295 . _:b421655804 . _:b421655805 . _:b421656528 . _:b421655806 . _:b421655807 . _:b421655800 . _:b421655801 . _:b421655802 . _:b421656176 . _:b421655803 . . _:b421655748 . _:b421655749 . _:b421655750 . _:b421655751 . _:b421656345 . _:b421655744 . _:b421655745 . _:b421655746 . _:b421655747 . _:b421655756 . _:b421655757 . _:b421655758 . . _:b421655759 . _:b421655752 . _:b421655826 . _:b421655753 . _:b421655754 . . _:b421655755 . _:b6691632 "org/), and DNA from all BAC clones was purified, labelled and individually verified for specificity by FISH and direct sequencing as described previously>>36<<. BAC DNA was labelled with either biotin or digoxygenin-l I-dUTP (Roche) using the Bioprime kit (Invitrogen) and FISH was performed as described previously36. Biotinylated probes were detected with Cy5\u2013Streptavidin (Invitrogen, Zymed" . _:b421655764 . _:b421655765 . _:b421655766 . _:b421655767 . _:b421655760 . _:b421655761 . _:b421655762 . _:b421656650 . _:b421656329 . _:b421655763 . _:b421655772 . _:b421655773 . _:b421655774 . . _:b421655775 . . _:b421655768 . _:b421655769 . _:b421655770 . _:b421655771 . _:b421655844 . . _:b421655845 . . _:b421655691 . _:b421655846 . _:b421655500 . _:b421655847 . _:b421656221 . _:b421655840 . _:b421655549 . _:b421655841 . _:b421655842 . _:b421655884 . _:b421655843 . _:b421655852 . _:b421655853 . _:b421655854 . . _:b421656842 . _:b421655855 . _:b421655848 . _:b421655849 . _:b421656139 . _:b421655850 . _:b421655851 . _:b421655927 . _:b421655860 . . _:b421655861 . _:b421655862 . _:b421655863 . _:b421655856 . . _:b421655857 . _:b421655858 . _:b421655859 . _:b421655868 . _:b421655869 . _:b421655870 . _:b421655510 . . _:b421655871 . _:b421655864 . . _:b421655865 . _:b421655866 . _:b421655867 . _:b421655812 . _:b421655813 . _:b421655814 . _:b421655815 . _:b421655808 . _:b421655809 . _:b421655810 . _:b421655811 . _:b6691602 "These events usually result in activation of the protein to contribute to oncogenesis, as in the paradigm of the BCR-ABL fusion gene in chronic myeloid leukaemia>>6<<." . . _:b421655820 . _:b421655821 . _:b421655822 . _:b421655823 . _:b421655816 . _:b421655404 . _:b421655817 . _:b421655818 . _:b421655819 . _:b421655828 . _:b421656550 . _:b421655829 . _:b421655830 . _:b421655831 . _:b421655824 . . _:b421655825 . _:b421655826 . . _:b421655827 . _:b421655836 . _:b421656671 . . _:b421655837 . . _:b421655838 . _:b421655839 . _:b421655832 . _:b421655833 . _:b421655834 . _:b421655835 . _:b421655908 . _:b421655909 . _:b421655525 . _:b421655910 . _:b421655911 . _:b421655904 . _:b421655905 . _:b421655906 . _:b421655907 . _:b421656521 . _:b421655916 . _:b421655570 . _:b421655917 . _:b421655918 . _:b421655919 . _:b421655912 . _:b421655913 . _:b421656780 . _:b421655914 . . _:b421655567 . _:b421655915 . _:b421655924 . _:b421655925 . _:b421655926 . . _:b421655927 . _:b421655920 . . _:b421655921 . _:b421655922 . _:b421655923 . _:b421655932 . _:b421656653 . _:b421656259 . _:b421655933 . _:b421655934 . _:b421655935 . . _:b421655928 . _:b421656391 . _:b421655929 . _:b421655930 . _:b421655931 . _:b421655876 . _:b421655877 . _:b421655878 . _:b421655879 . _:b421655872 . . _:b421655873 . _:b421655874 . _:b421655875 . _:b421655884 . . _:b421655885 . _:b421655886 . _:b421655887 . _:b421655880 . _:b421655881 . _:b421655882 . . _:b421655883 . _:b421655892 . _:b421655893 . _:b421655894 . _:b421655895 . _:b421655888 . . _:b421655889 . _:b421655890 . _:b421655891 . . _:b421655900 . _:b421655901 . _:b421655902 . _:b421655903 . . _:b421655896 . _:b421655435 . _:b421655897 . _:b421655898 . _:b421655899 . _:b421655972 . _:b421655973 . _:b421655974 . _:b421655975 . _:b421655968 . _:b421655969 . _:b421656787 . _:b421655970 . _:b421655971 . _:b421655980 . . _:b421655981 . . _:b421655982 . _:b421655983 . _:b421655976 . _:b421655672 . _:b421655977 . _:b421655978 . _:b421655979 . _:b421655988 . _:b421655989 . _:b421655990 . _:b421655991 . . _:b421655984 . _:b421655985 . _:b421655986 . _:b421655987 . _:b421655996 . _:b421655997 . _:b421655998 . _:b421655999 . _:b421655992 . _:b421655993 . _:b421655994 . _:b421655995 . _:b421655940 . _:b421655941 . . _:b421655942 . _:b421655943 . _:b421655936 . _:b421655937 . . _:b421655938 . _:b421655939 . _:b421656632 . _:b421655989 . _:b421655948 . _:b421655949 . _:b421655477 . _:b421655950 . . _:b421655951 . . _:b421655944 . . _:b421655945 . _:b421655946 . _:b421655947 . . _:b421655956 . _:b421655957 . _:b421655958 . _:b421655959 . _:b421655714 . _:b421655952 . . _:b421655953 . _:b421655954 . _:b6691638 "It may reside in the licensing mechanisms responsible for defining, priming and monitoring origins of DNA replication>>28<<." . _:b421655955 . . _:b421655964 . . _:b421655965 . _:b421655966 . _:b421655967 . _:b421655960 . _:b6691640 "Breast cancers are highly heterogeneous and are subclassified on the basis of estrogen receptor, progesterone receptor and ERBB2 expression and by mRNA expression profiles29,>>30<<. Subclasses defined in these ways show correlations with patterns of genomic alteration31,32." . _:b421655961 . . _:b421655962 . . _:b421655963 . _:b421656036 . _:b421656037 . _:b421656038 . _:b421656039 . _:b421655764 . _:b421656032 . _:b421655587 . _:b421656033 . _:b421656034 . _:b421656035 . _:b421656044 . _:b421656045 . _:b421656046 . _:b421656047 . _:b421656040 . _:b421656041 . _:b421656042 . . _:b421656043 . _:b421656052 . _:b421656053 . _:b421656054 . _:b421656055 . _:b421656048 . _:b421656049 . _:b421656050 . _:b421656051 . _:b421656060 . _:b421656061 . _:b421656062 . _:b421656063 . _:b421656056 . _:b421656057 . _:b421656058 . _:b421656059 . _:b421656004 . _:b421656005 . _:b421655402 . _:b421656006 . _:b421656007 . _:b421656629 . _:b421656000 . . _:b421656001 . _:b421656002 . _:b421656003 . _:b421656012 . _:b421656013 . _:b421656014 . _:b421656015 . _:b421656008 . _:b421656009 . _:b421656010 . _:b421656011 . _:b421656020 . _:b421656021 . _:b421656022 . _:b421656023 . _:b421656016 . _:b421656017 . _:b421656018 . _:b421656019 . _:b421656028 . _:b421656029 . _:b421656030 . _:b421656031 . _:b421656024 . _:b421656581 . _:b421656025 . _:b421656211 . _:b421656026 . . _:b421656027 . . . _:b421655625 . _:b421655423 . _:b421655624 . . _:b421656263 . _:b421655638 . _:b6691627 . _:b421656179 . . . _:b421656749 . _:b6691630 . _:b421655758 . . . . . . _:b421655935 . . . . . . _:b421656664 . _:b6691610 . _:b421655583 . _:b421656367 . . . . . . . . . . _:b6691618 "It has previously been suggested that there exist multiple NHEJ repair processes which may be characterised by different lengths of overlapping microhomology at rearrangement junctions>>21<<,22. To investigate this possibility we examined the distribution of microhomology lengths in each breast cancer (Figure 1c, Supplementary Figure 6)." . _:b6691615 . _:b421655780 . _:b421656229 . . _:b421656027 . _:b421655467 . . _:b421656694 . . . _:b421656481 . . . _:b421655664 . _:b421655396 . . _:b421655345 . _:b421656277 . . . . . . _:b421655519 . . _:b421656523 . . _:b421655454 . _:b421656354 . _:b421655527 . _:b421656236 . . _:b421655913 . . . _:b421655903 . . . _:b6691639 "Breast cancers are highly heterogeneous and are subclassified on the basis of estrogen receptor, progesterone receptor and ERBB2 expression and by mRNA expression profiles>>29<<,30. Subclasses defined in these ways show correlations with patterns of genomic alteration31,32." . . . _:b421655709 . . _:b421656162 . _:b421655874 . _:b421655420 . _:b421655604 . _:b421655879 . . . _:b6691634 "and alternating polypyrimidine/polypurine) were compared in the breakpoint and control regions using a one-tailed Mann-Whitney U test and the average GC content and presence of known motifs associated with DNA breaks>>37<< were compared using a Fisher exact test." . . _:b421656568 . _:b421656337 . . _:b421655462 . . . _:b421656172 . . _:b421655387 . _:b421656854 . _:b421656197 . _:b421655589 . _:b6691644 "Nevertheless, as previously suggested for somatic point mutations13,>>14<< it may be that multiple, infrequently rearranged cancer genes are operative in breast cancer as they are in leukaemia2." . . _:b421656662 . . . . _:b421655406 . _:b421656700 . . _:b421656005 . . . _:b421656418 . _:b421656458 . . _:b421655797 . . _:b421656511 . _:b421655639 . _:b421656461 . _:b421655746 . . . . _:b421655762 . "PMC0" . _:b421656764 . . _:b421655555 . _:b421656325 . _:b421656324 . _:b421656327 . _:b421655776 . _:b421656326 . _:b421656338 . _:b421656321 . . _:b421656320 . _:b421656323 . _:b421656683 . _:b421656322 . _:b421655373 . _:b421656333 . . . _:b421656332 . _:b421656358 . _:b421656335 . _:b421655877 . _:b421656334 . . _:b421655317 . . . _:b421656329 . . _:b421655921 . _:b421656328 . . . _:b421656331 . _:b421656330 . _:b421656341 . . . _:b421656340 . _:b421656343 . . . . _:b421656342 . . _:b421656713 . . . _:b421656337 . _:b421656336 . . _:b421656339 . _:b421656338 . . _:b421656349 . _:b421656620 . _:b421656348 . . _:b421656351 . . _:b421656350 . _:b421656345 . . _:b421656344 . _:b421655949 . _:b421656347 . _:b421655354 . _:b421656003 . _:b421656346 . _:b421656514 . _:b421656821 . _:b421656357 . _:b421656356 . . _:b421656154 . _:b421656359 . _:b421656358 . . _:b421656353 . _:b421656352 . _:b421656257 . _:b421655565 . _:b421656355 . _:b421656817 . . . _:b421656354 . _:b421656365 . . _:b421656364 . _:b421656127 . _:b421656367 . _:b421656794 . . _:b421656366 . _:b421656639 . _:b421656361 . _:b421656738 . _:b421656026 . . . _:b421656360 . _:b421656363 . _:b421656474 . _:b421656362 . . _:b421656373 . _:b421656372 . _:b421656375 . . _:b421656374 . . . _:b421656369 . _:b421656741 . . _:b421656368 . _:b421655442 . _:b421656371 . . _:b421656815 . _:b421656370 . . _:b421656562 . _:b421656381 . _:b6691600 "Cytogenetic studies over several decades have shown that somatic rearrangements, in particular chromosomal translocations, occur in many human cancer genomes>>1<<-3. The prevalence of rearrangements is, however, variable with some cancer genomes exhibiting few and others, including the genomes of many common adult epithelial cancers, showing many." . _:b421656380 . . _:b421656290 . _:b421656383 . _:b421656382 . _:b421656377 . . _:b421656717 . _:b421656376 . _:b421656739 . . _:b421656224 . _:b421656379 . _:b421656498 . _:b421656378 . _:b421655444 . _:b421656034 . _:b421656234 . _:b421656389 . _:b421656388 . _:b421656792 . _:b421656391 . . . . _:b421656390 . . _:b421656385 . _:b421656807 . _:b421656384 . _:b6691630 "Full methods for generation of high resolution, genome wide copy number information can be found in reference>>17<<. Briefly, the human reference genome was divided into bins of ~15kb of mappable sequence and high quality, correctly mapping read pairs, with a MAQ alternative mapping quality \u226535, were assigned to their correct bin and plotted." . _:b421655521 . _:b421656408 . _:b421656387 . _:b421656403 . _:b421656386 . _:b421655534 . _:b421656397 . _:b421656565 . _:b421656396 . _:b421656766 . _:b421655803 . . _:b421656399 . _:b421656398 . _:b421656393 . _:b421656392 . _:b421656529 . . _:b421656395 . . _:b421656394 . _:b421656405 . _:b421655990 . _:b421656404 . . _:b421656407 . . _:b421656300 . _:b421655945 . _:b421656406 . _:b421656401 . _:b421656400 . . . _:b421656403 . _:b421656402 . _:b421656413 . . _:b421656412 . _:b421655810 . _:b421656415 . . . . _:b421656414 . . _:b421656409 . _:b421656520 . _:b421656422 . _:b421656408 . _:b421656411 . . . _:b421656410 . . _:b421656421 . _:b421655504 . _:b421655609 . _:b421656427 . _:b421656420 . _:b421656439 . . _:b421656423 . _:b421656029 . _:b421656846 . . . _:b421656152 . _:b421656422 . . _:b421656417 . _:b421656416 . _:b421655831 . . _:b421656419 . _:b421656438 . _:b421656732 . _:b421656418 . _:b421656429 . _:b421655579 . _:b421656428 . _:b421655784 . _:b421656750 . . _:b421656727 . _:b421656431 . . _:b6691611 "results" . _:b421656430 . _:b421656425 . _:b421655513 . _:b421656424 . _:b421656427 . _:b421656710 . . _:b421656426 . _:b421656437 . _:b421656436 . . _:b421655535 . _:b421656313 . _:b421656439 . _:b421656438 . _:b421655582 . . _:b421656433 . _:b421656432 . _:b421656435 . . _:b421656434 . . _:b421656445 . _:b421656444 . _:b421656447 . _:b421655325 . _:b421656446 . _:b421655574 . . _:b421656441 . . _:b421655981 . _:b421656440 . _:b421656516 . _:b421656010 . _:b421656443 . . _:b421656442 . _:b421655553 . _:b421656453 . _:b421656512 . _:b421656452 . . _:b421656695 . _:b421655775 . _:b421656455 . _:b421656486 . _:b421656454 . . . _:b421656449 . . _:b421655645 . _:b421656448 . . . _:b421656451 . _:b421655933 . _:b421656450 . _:b421656690 . _:b421656461 . _:b421655980 . _:b421656460 . . _:b421656463 . _:b421656258 . . . _:b421656462 . _:b6691607 "of cytogenetically visible rearrangement patterns in the genomes of many adult epithelial cancers and the consequent difficulty in prior selection of driver rearrangements for further study among the many likely passenger changes>>9<<. Rearrangements also constitute a subset of mutational events that result in inactivation of recessive cancer genes (tumour suppressor genes) and underlie genomic amplifications that result in increased copy number of cancer genes10-12." . _:b421656395 . _:b421656457 . . _:b421656292 . _:b421656456 . _:b421656459 . _:b421656458 . . . _:b421656469 . _:b421656468 . _:b421656471 . _:b421655724 . . _:b421656470 . _:b421656465 . . _:b421656595 . . _:b421656464 . _:b421656002 . . _:b421656467 . . _:b421656466 . _:b421656477 . _:b421655887 . _:b421656476 . . _:b421656825 . _:b421656479 . _:b421656478 . . _:b421656225 . _:b421656473 . _:b421656472 . _:b421656019 . . _:b421656475 . _:b421655812 . _:b421656474 . . _:b421655608 . _:b421655371 . _:b421656485 . _:b421656484 . _:b421656487 . _:b421656486 . _:b421655991 . _:b421656573 . _:b421656481 . _:b421656504 . _:b421656480 . . . _:b421656483 . _:b421655710 . _:b421656482 . . . _:b421655630 . _:b421656493 . . . _:b421656492 . _:b421656108 . _:b421655658 . _:b421656495 . _:b421655800 . _:b421656494 . . _:b421655542 . _:b421656489 . _:b6691641 "Subclasses defined in these ways show correlations with patterns of genomic alteration>>31<<,32. Breast cancers with many tandem duplications are usually estrogen and progesterone receptor negative and classified by expression profile as basal-like. In contrast, cancers with few rearrangements or with rearrangements within" . _:b421655447 . _:b421656488 . . . _:b421656393 . _:b421656491 . . _:b421655433 . _:b421656490 . . . _:b421656501 . . _:b421656500 . . . _:b421656318 . . . _:b421656503 . . . _:b421656502 . . . _:b421656497 . _:b421655461 . _:b421656524 . _:b421656496 . _:b421655358 . . _:b421656499 . . . _:b421656498 . _:b421655390 . . _:b421656509 . _:b421656542 . _:b421655896 . _:b421656508 . _:b421656059 . _:b421656511 . . _:b421656510 . . _:b421656838 . _:b421656505 . _:b421656504 . _:b421656507 . . _:b421656506 . _:b421656744 . _:b421656847 . _:b421656517 . _:b421656516 . _:b421655355 . _:b421656519 . _:b421656518 . _:b421656556 . _:b421656291 . _:b421656513 . _:b421655633 . _:b421656512 . _:b421656834 . _:b421656118 . . _:b421656515 . _:b421656514 . . . _:b421656525 . _:b421656524 . _:b421656527 . _:b421655501 . . _:b421656526 . _:b6691631 . _:b421655459 . _:b421656521 . . _:b421655581 . _:b421656520 . _:b421656523 . . _:b421656522 . _:b421656522 . _:b421656012 . _:b421656533 . _:b421656156 . _:b421656532 . _:b421656535 . _:b421655675 . _:b421656534 . _:b421655414 . . _:b421656529 . _:b421656346 . _:b421656528 . _:b421656278 . _:b421656531 . _:b421656688 . _:b421656530 . _:b421656541 . . _:b421656540 . _:b421656543 . . . _:b421656542 . _:b421656689 . _:b421656537 . _:b421656536 . . _:b421656539 . _:b421656549 . _:b421656538 . . _:b421656549 . . _:b421656548 . _:b421656148 . . . _:b421656551 . . . _:b421656550 . _:b421655855 . _:b421656545 . . _:b421656368 . _:b421656054 . . _:b421656544 . _:b421655603 . _:b421656547 . _:b421656492 . _:b421656546 . _:b421655491 . _:b421656557 . _:b421656556 . _:b421656090 . _:b421656559 . _:b421655507 . _:b421656558 . _:b421656553 . _:b421656552 . . . _:b421656206 . _:b421656555 . _:b421655377 . . _:b421656554 . . _:b421656565 . . _:b421656564 . _:b421656567 . . _:b421655388 . _:b421656566 . . _:b421655650 . . . _:b421656561 . _:b421656560 . _:b421656637 . _:b421656563 . _:b6691619 "It has previously been suggested that there exist multiple NHEJ repair processes which may be characterised by different lengths of overlapping microhomology at rearrangement junctions21,>>22<<. To investigate this possibility we examined the distribution of microhomology lengths in each breast cancer (Figure 1c, Supplementary Figure 6)." . _:b421656816 . . _:b421656562 . _:b421655953 . _:b421656573 . . . _:b421656572 . . _:b421655834 . _:b421656575 . . _:b421656201 . _:b421655687 . _:b421656574 . . . _:b421655559 . _:b421656569 . _:b421656568 . _:b421656431 . _:b421656606 . _:b421656571 . . . _:b421656570 . _:b421656069 . _:b421655652 . _:b421655572 . _:b421656483 . . . _:b421656068 . _:b421656071 . _:b421655335 . . _:b421656070 . _:b421656293 . _:b421655306 . . _:b421656065 . _:b6691619 . _:b421656064 . . _:b421655456 . . _:b421656067 . . . _:b421656066 . _:b421656077 . _:b6691642 . _:b421656076 . _:b421656079 . _:b421656078 . _:b421655952 . _:b421656745 . _:b421656073 . _:b421656434 . _:b421656674 . _:b421656072 . _:b421656856 . . _:b421656153 . _:b421656075 . _:b421655308 . _:b421656074 . . _:b421656085 . . _:b421656084 . . . _:b421656335 . _:b421656087 . . _:b421656086 . _:b421655750 . _:b421656081 . . _:b421656080 . . _:b421656083 . . _:b421655740 . _:b421656082 . _:b421656214 . _:b421656093 . _:b421656795 . _:b421656081 . _:b421656092 . _:b421656095 . _:b421655925 . _:b421656094 . _:b421656024 . . . _:b421656089 . _:b421655536 . _:b421656088 . _:b421656546 . _:b421656091 . _:b421656090 . _:b421655970 . _:b421656101 . . _:b421656100 . _:b421656103 . _:b421655637 . . _:b421655760 . _:b421656102 . . _:b421655721 . _:b421656097 . . _:b421656087 . _:b421656275 . _:b421656096 . . _:b421656099 . . _:b421656098 . . . _:b421656109 . _:b421656312 . _:b421655986 . _:b421656108 . _:b421656111 . . . _:b421656110 . . . _:b421656105 . _:b421656043 . . _:b421656104 . _:b421656107 . . . _:b421655761 . . _:b421656106 . . . _:b421656117 . . _:b421656116 . _:b421656539 . _:b421656119 . _:b421656812 . _:b421656118 . _:b421656567 . . . _:b421656113 . _:b421656348 . . . _:b421656112 . _:b421656682 . . . . _:b421656115 . _:b421656256 . _:b421656774 . _:b421656114 . _:b421656125 . _:b421656124 . _:b421656127 . _:b421656453 . . . _:b421656126 . _:b421656519 . _:b421656121 . _:b421655729 . _:b421656120 . _:b421655987 . . _:b421656123 . . _:b421656513 . _:b421656122 . . _:b421656133 . . . _:b421656132 . _:b421656135 . . _:b421656405 . _:b421656134 . _:b421656129 . _:b421656128 . _:b421656096 . . _:b421656128 . _:b421656274 . . _:b421656131 . . _:b421655919 . . _:b421656130 . . . _:b421656141 . . . _:b421656644 . _:b421655869 . _:b421656140 . _:b421655502 . . . _:b421656143 . . _:b421656142 . _:b421656137 . . _:b421656120 . _:b421656136 . _:b421655590 . _:b421656113 . _:b421656139 . _:b6691604 . . _:b421656138 . _:b421656149 . _:b421655457 . _:b421656148 . _:b421656100 . _:b6691601 . _:b421656553 . _:b421655568 . _:b421655585 . _:b421656446 . _:b421655745 . _:b421656151 . _:b421656585 . _:b6691600 . _:b421656150 . . _:b421656145 . _:b421656144 . . _:b421655997 . . _:b421656147 . . _:b421656146 . . . . _:b421656157 . _:b421656036 . . _:b421656156 . _:b421656390 . _:b421656159 . . _:b421656158 . _:b421655900 . . _:b421655429 . _:b421656153 . _:b421656342 . _:b421656152 . _:b421656155 . _:b6691599 "introduction" . . _:b421656154 . . . . _:b421656165 . . . _:b421656164 . _:b421656167 . _:b421656166 . _:b421656161 . _:b421656175 . _:b421656160 . _:b421656618 . _:b421656163 . _:b421656378 . _:b421656349 . _:b421656162 . _:b421656243 . _:b421656173 . . _:b421656172 . _:b421656175 . _:b421656174 . _:b421656720 . _:b421656169 . . . _:b421656168 . _:b421656305 . _:b421656375 . . _:b421656171 . _:b421656170 . _:b421656347 . _:b421656181 . _:b421656180 . _:b421656183 . . _:b421656182 . _:b421656177 . _:b421655376 . . _:b421656176 . _:b421656099 . . _:b6691608 . _:b421655858 . _:b421656179 . _:b421656178 . _:b421656189 . . . _:b421656188 . _:b421656191 . _:b421656114 . _:b421656723 . . _:b6691613 . _:b421656064 . . _:b421656190 . _:b421655483 . . _:b421656185 . . _:b421656747 . _:b421656626 . _:b421656184 . . _:b421656187 . _:b421655963 . _:b421655541 . _:b421656186 . _:b421656197 . . _:b421656589 . _:b421656196 . _:b421656199 . _:b421656198 . _:b421656193 . _:b421656192 . _:b421656195 . _:b421656194 . . _:b421656205 . . _:b6691608 . _:b421656204 . _:b421656440 . _:b421656207 . . _:b421656206 . _:b421656201 . _:b421656200 . _:b421655975 . _:b421656317 . _:b421656203 . . _:b421656679 . _:b421656202 . . . . _:b421656213 . _:b421656212 . _:b421656215 . _:b421656214 . _:b421656209 . _:b421656208 . . _:b421655815 . . _:b421656211 . _:b421655996 . . . _:b421656210 . _:b421656221 . _:b421656220 . _:b421656793 . _:b421656223 . _:b421656222 . . _:b421656217 . _:b421656216 . . _:b421656219 . _:b421655988 . _:b421656133 . _:b421656218 . _:b421655648 . _:b421656229 . _:b421656228 . _:b421656231 . _:b421656230 . _:b421656225 . _:b421656634 . _:b421656224 . _:b421656053 . _:b421656227 . _:b421655634 . _:b421656226 . . . _:b421656238 . _:b421655908 . _:b421655881 . _:b421656237 . _:b421655754 . . _:b421656236 . _:b421655839 . _:b421656239 . _:b421656238 . . _:b421656233 . . _:b421656232 . _:b421656235 . _:b421656234 . . _:b421656245 . _:b421656244 . _:b421655992 . _:b421656247 . . _:b421655731 . _:b421656246 . . _:b421655733 . . _:b421656241 . _:b421656240 . _:b421656243 . _:b421656182 . _:b421656242 . _:b421656253 . _:b421655703 . _:b421656436 . _:b421655434 . _:b421656252 . _:b421656255 . _:b421656254 . _:b421655384 . _:b421656249 . _:b421655366 . _:b421655481 . _:b421656248 . _:b421656404 . . _:b421656251 . . . . _:b421656250 . . _:b421656377 . _:b421656261 . _:b421656260 . _:b421656263 . _:b421655965 . _:b421656262 . _:b421655337 . . _:b421656257 . _:b421656288 . . _:b421656256 . _:b421656406 . . _:b421656259 . . _:b421656258 . _:b421656765 . _:b421656269 . . _:b421655584 . _:b421656268 . _:b421655678 . _:b421656271 . _:b421656270 . _:b421656265 . . _:b421656264 . _:b421655505 . _:b421656267 . . . . _:b421656831 . . _:b421656266 . . _:b421656277 . _:b421656276 . . _:b421656279 . _:b421656278 . _:b421656273 . . . _:b421656272 . . . _:b421656245 . _:b421656275 . _:b421656414 . . _:b421656571 . _:b421656274 . _:b421655712 . _:b421656285 . _:b421656187 . . _:b421656284 . . . _:b421656396 . _:b421656287 . . . _:b421656159 . _:b421656286 . _:b421656281 . . . _:b421656707 . _:b421656806 . _:b421656280 . _:b421656506 . _:b421656283 . _:b421655906 . _:b6691628 . _:b421656740 . _:b421656282 . _:b421655458 . _:b421656293 . _:b421656292 . . _:b421656295 . _:b421656294 . _:b421656289 . _:b421656288 . . . . . _:b421656291 . . _:b421656290 . . _:b421656301 . _:b421656300 . . _:b421656303 . . _:b421656302 . . _:b421656297 . . _:b421656296 . _:b421655795 . _:b421656299 . _:b421656008 . _:b421656561 . _:b421656298 . _:b421655599 . . _:b421656309 . _:b421656308 . . . _:b421655772 . _:b421656311 . . _:b421656310 . . _:b421656305 . _:b421656304 . . _:b421656307 . . _:b421656057 . _:b421656306 . _:b421656085 . _:b421656317 . . _:b421656316 . . _:b421655600 . _:b421656319 . _:b421656318 . _:b421656313 . . _:b421656312 . . . _:b421656315 . _:b421656314 . . _:b421655563 . . _:b421656222 . _:b421655813 . _:b421656726 . _:b421655812 . _:b421655815 . _:b421656129 . _:b421656058 . _:b421656385 . _:b421655814 . _:b421656566 . _:b421655983 . _:b421655809 . _:b421655808 . _:b421655811 . _:b421655810 . _:b421655821 . _:b421655759 . . _:b421655820 . _:b421655656 . _:b421655823 . _:b421655822 . . _:b421656808 . . _:b421655817 . _:b421656202 . _:b421655861 . . _:b421656324 . . _:b421656373 . _:b421655816 . . _:b421655819 . . _:b421655439 . _:b421655818 . _:b421656149 . _:b421656042 . _:b421655829 . _:b421656140 . . _:b421655828 . . _:b421656164 . _:b421655831 . . _:b421655401 . _:b421655932 . _:b421655830 . . _:b421655825 . _:b421656478 . _:b421655824 . . . _:b421655827 . . . _:b421655826 . _:b421655837 . _:b421656619 . _:b421656420 . _:b421655836 . . _:b421655839 . . _:b421655838 . _:b421655833 . . _:b421655832 . . _:b421655835 . _:b421656748 . _:b421655834 . _:b421656006 . 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