‘Chromatin-dependent’ origins identified based on clustering of the gEMSA data.

The twenty ‘chromatin-dependent’ origins identified in Figure 4C: The origins are listed top to bottom in order of their orc2-1/ORC2 ChIP-chip peak area ratios. The six origins in bold were already classified as ‘chromatin-dependent’ based on the origin-specific EMSA data in Figure 1E and Table 1. Of the thirteen remaining origins, seven had confirmed ORC binding sites (1: [92]; 2: [92], [95], [96]). The apparent Kds for these sites were determined by ORC-EMSAs and are indicated. ARS516 is the only DNA-dependent origin from Figure 1E that was identified by the gEMSA clustering in Figure 4C as ‘chromatin-dependent.’ The apparent Kd for ARS516-ORC places this ARS near the arbitrary ‘chromatin-dependent’ cut-off used in Figure 1E, suggesting that ORC-origin DNA and ORC-chromatin interactions both contribute to ORC binding to this origin.