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Table 1 Characterization of replication origins in cancer and non-cancer cells

From: Distinct epigenetic features of differentiation-regulated replication origins

Row # Cell line # of All origins # Shared origins # of Cell-specific origins % Shared % Cell specific
1 ES 90,621 62,477 8507 68.9 9.4
2 EB 144,753 65,868 18,366 45.5 12.7
3 AS_iPS 119,944 67,977 14,896 56.7 12.4
4 PWS_iPS 135,397 76,642 16,471 56.6 12.2
5 K562 202,653 64,972 35,266 32.1 17.4
6 MCF7 193,118 62,930 26,100 32.6 13.5
7 HCT116 78,859 57,873 1319 73.4 1.7
8 U2OS 92,814 60,631 3955 65.3 4.3
  1. Replication origins were identified as regions enriched in nascent strand reads in four non-cancer cell lines (ES, EB, AS_iPS and PWS_iPS) and in four cancer cell lines (K562, MCF7, HCT116, U2OS). The number of replication origins is the number of origin peaks called versus the appropriate genomic control for each cell line (see “Methods” section and Additional file 1 for details and reproducibility data). The number of shared origins is the number of origin peaks that were present in the indicated cell line and in all other cells of the same group (non-cancer cells for ES, EB and the two iPS lines and cancer cells for K562, MCF7, HCT116 and U2OS). The number of cell-specific origins is the number of origin peaks that were present in the reference cell line, but not in any of the other cells of the same group. The “% shared” peaks and the “% cell-specific” peaks represent the percentage of shared and cell-specific peaks, respectively, versus the overall number of peaks in the indicated file